Last updated on 2020-02-19 10:48:48 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0 | 26.93 | 114.81 | 141.74 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 1.0 | 21.38 | 83.51 | 104.89 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.0 | 165.61 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0 | 158.35 | ERROR | |||
| r-devel-windows-ix86+x86_64 | 1.0 | 49.00 | 136.00 | 185.00 | OK | |
| r-devel-windows-ix86+x86_64-gcc8 | 1.0 | 63.00 | 202.00 | 265.00 | OK | |
| r-patched-linux-x86_64 | 1.0 | 25.63 | 95.09 | 120.72 | OK | |
| r-patched-solaris-x86 | 1.0 | 190.40 | OK | |||
| r-release-linux-x86_64 | 1.0 | 22.52 | 94.56 | 117.08 | OK | |
| r-release-windows-ix86+x86_64 | 1.0 | 60.00 | 135.00 | 195.00 | OK | |
| r-release-osx-x86_64 | 1.0 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0 | 50.00 | 132.00 | 182.00 | OK | |
| r-oldrel-osx-x86_64 | 1.0 | OK |
Version: 1.0
Check: tests
Result: ERROR
Running 'testthat.R' [15s/13s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(cleanEHR)
>
>
> test_check("cleanEHR")
----------- FAILURE REPORT --------------
--- failure: the condition has length > 1 ---
--- srcref ---
:
--- package (from environment) ---
cleanEHR
--- call from context ---
icnarc.breakdown(c("1", "1.2.3.4"))
--- call from argument ---
if (class(cols) == "numeric") return(combine(cols)) else return(apply(cols,
1, combine))
--- R stacktrace ---
where 1: icnarc.breakdown(c("1", "1.2.3.4"))
where 2: eval_bare(expr, quo_get_env(quo))
where 3: quasi_label(enquo(object), label, arg = "object")
where 4 at testthat/test_utilities.r#14: expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
where 5: eval(code, test_env)
where 6: eval(code, test_env)
where 7: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 8: doTryCatch(return(expr), name, parentenv, handler)
where 9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 10: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 11: doTryCatch(return(expr), name, parentenv, handler)
where 12: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 13: tryCatchList(expr, classes, parentenv, handlers)
where 14: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 15: test_code(desc, code, env = parent.frame())
where 16 at testthat/test_utilities.r#3: test_that("break down ICNARC code", {
expect_equivalent(icnarc.breakdown("1.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3.4.5", 4), "1.2.3.4")
expect_equivalent(icnarc.breakdown("10.2.3.4.5"), "10.2.3")
expect_equivalent(icnarc.breakdown("01.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2"), "1.2")
expect_equivalent(icnarc.breakdown("1"), "1")
expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
})
where 17: eval(code, test_env)
where 18: eval(code, test_env)
where 19: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 20: doTryCatch(return(expr), name, parentenv, handler)
where 21: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 22: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 23: doTryCatch(return(expr), name, parentenv, handler)
where 24: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 25: tryCatchList(expr, classes, parentenv, handlers)
where 26: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 27: test_code(NULL, exprs, env)
where 28: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
where 29: force(code)
where 30: doWithOneRestart(return(expr), restart)
where 31: withOneRestart(expr, restarts[[1L]])
where 32: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 33: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
{
reporter$start_file(basename(path))
lister$start_file(basename(path))
source_file(path, new.env(parent = env), chdir = TRUE,
wrap = wrap)
reporter$.end_context()
reporter$end_file()
})
where 34: FUN(X[[i]], ...)
where 35: lapply(paths, test_file, env = env, reporter = current_reporter,
start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
where 36: force(code)
where 37: doWithOneRestart(return(expr), restart)
where 38: withOneRestart(expr, restarts[[1L]])
where 39: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 40: with_reporter(reporter = current_reporter, results <- lapply(paths,
test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
load_helpers = FALSE, wrap = wrap))
where 41: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 42: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
wrap = wrap)
where 43: test_package_dir(package = package, test_path = test_path, filter = filter,
reporter = reporter, ..., stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 44: test_check("cleanEHR")
--- value of length: 2 type: logical ---
[1] FALSE FALSE
--- function from context ---
function (r, digits = 3)
{
cols <- strsplit(r, "[.]")
cols <- lapply(cols, function(x) {
x <- tryCatch(as.numeric(x), warning = function(w) {
return(NA)
})
if (length(x) < 5)
x <- c(x, rep(NA, 5 - length(x)))
if (length(x) > 5)
x <- x[1:5]
x
})
cols <- t(data.frame(cols))
rownames(cols) <- seq(nrow(cols))
cols <- cols[, 1:digits]
combine <- function(x) {
x <- x[!is.na(x)]
paste(x, collapse = ".")
}
if (digits == 1)
return(as.character(cols))
if (class(cols) == "numeric")
return(combine(cols))
else return(apply(cols, 1, combine))
}
<bytecode: 0x14ce700>
<environment: namespace:cleanEHR>
--- function search by body ---
Function icnarc.breakdown in namespace cleanEHR has this body.
----------- END OF FAILURE REPORT --------------
-- 1. Error: break down ICNARC code (@test_utilities.r#14) --------------------
the condition has length > 1
Backtrace:
1. testthat::expect_equivalent(...)
4. cleanEHR:::icnarc.breakdown(c("1", "1.2.3.4"))
== testthat results ===========================================================
[ OK: 229 | SKIPPED: 15 | WARNINGS: 0 | FAILED: 1 ]
1. Error: break down ICNARC code (@test_utilities.r#14)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [10s/14s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(cleanEHR)
>
>
> test_check("cleanEHR")
----------- FAILURE REPORT --------------
--- failure: the condition has length > 1 ---
--- srcref ---
:
--- package (from environment) ---
cleanEHR
--- call from context ---
icnarc.breakdown(c("1", "1.2.3.4"))
--- call from argument ---
if (class(cols) == "numeric") return(combine(cols)) else return(apply(cols,
1, combine))
--- R stacktrace ---
where 1: icnarc.breakdown(c("1", "1.2.3.4"))
where 2: eval_bare(expr, quo_get_env(quo))
where 3: quasi_label(enquo(object), label, arg = "object")
where 4 at testthat/test_utilities.r#14: expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
where 5: eval(code, test_env)
where 6: eval(code, test_env)
where 7: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 8: doTryCatch(return(expr), name, parentenv, handler)
where 9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 10: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 11: doTryCatch(return(expr), name, parentenv, handler)
where 12: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 13: tryCatchList(expr, classes, parentenv, handlers)
where 14: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 15: test_code(desc, code, env = parent.frame())
where 16 at testthat/test_utilities.r#3: test_that("break down ICNARC code", {
expect_equivalent(icnarc.breakdown("1.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3.4.5", 4), "1.2.3.4")
expect_equivalent(icnarc.breakdown("10.2.3.4.5"), "10.2.3")
expect_equivalent(icnarc.breakdown("01.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2"), "1.2")
expect_equivalent(icnarc.breakdown("1"), "1")
expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
})
where 17: eval(code, test_env)
where 18: eval(code, test_env)
where 19: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 20: doTryCatch(return(expr), name, parentenv, handler)
where 21: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 22: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 23: doTryCatch(return(expr), name, parentenv, handler)
where 24: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 25: tryCatchList(expr, classes, parentenv, handlers)
where 26: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 27: test_code(NULL, exprs, env)
where 28: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
where 29: force(code)
where 30: doWithOneRestart(return(expr), restart)
where 31: withOneRestart(expr, restarts[[1L]])
where 32: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 33: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
{
reporter$start_file(basename(path))
lister$start_file(basename(path))
source_file(path, new.env(parent = env), chdir = TRUE,
wrap = wrap)
reporter$.end_context()
reporter$end_file()
})
where 34: FUN(X[[i]], ...)
where 35: lapply(paths, test_file, env = env, reporter = current_reporter,
start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
where 36: force(code)
where 37: doWithOneRestart(return(expr), restart)
where 38: withOneRestart(expr, restarts[[1L]])
where 39: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 40: with_reporter(reporter = current_reporter, results <- lapply(paths,
test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
load_helpers = FALSE, wrap = wrap))
where 41: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 42: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
wrap = wrap)
where 43: test_package_dir(package = package, test_path = test_path, filter = filter,
reporter = reporter, ..., stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 44: test_check("cleanEHR")
--- value of length: 2 type: logical ---
[1] FALSE FALSE
--- function from context ---
function (r, digits = 3)
{
cols <- strsplit(r, "[.]")
cols <- lapply(cols, function(x) {
x <- tryCatch(as.numeric(x), warning = function(w) {
return(NA)
})
if (length(x) < 5)
x <- c(x, rep(NA, 5 - length(x)))
if (length(x) > 5)
x <- x[1:5]
x
})
cols <- t(data.frame(cols))
rownames(cols) <- seq(nrow(cols))
cols <- cols[, 1:digits]
combine <- function(x) {
x <- x[!is.na(x)]
paste(x, collapse = ".")
}
if (digits == 1)
return(as.character(cols))
if (class(cols) == "numeric")
return(combine(cols))
else return(apply(cols, 1, combine))
}
<bytecode: 0x55973ee73cc8>
<environment: namespace:cleanEHR>
--- function search by body ---
Function icnarc.breakdown in namespace cleanEHR has this body.
----------- END OF FAILURE REPORT --------------
── 1. Error: break down ICNARC code (@test_utilities.r#14) ────────────────────
the condition has length > 1
Backtrace:
1. testthat::expect_equivalent(...)
4. cleanEHR:::icnarc.breakdown(c("1", "1.2.3.4"))
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 229 | SKIPPED: 15 | WARNINGS: 0 | FAILED: 1 ]
1. Error: break down ICNARC code (@test_utilities.r#14)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [13s/14s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(cleanEHR)
>
>
> test_check("cleanEHR")
----------- FAILURE REPORT --------------
--- failure: the condition has length > 1 ---
--- srcref ---
:
--- package (from environment) ---
cleanEHR
--- call from context ---
icnarc.breakdown(c("1", "1.2.3.4"))
--- call from argument ---
if (class(cols) == "numeric") return(combine(cols)) else return(apply(cols,
1, combine))
--- R stacktrace ---
where 1: icnarc.breakdown(c("1", "1.2.3.4"))
where 2: eval_bare(expr, quo_get_env(quo))
where 3: quasi_label(enquo(object), label, arg = "object")
where 4 at testthat/test_utilities.r#14: expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
where 5: eval(code, test_env)
where 6: eval(code, test_env)
where 7: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 8: doTryCatch(return(expr), name, parentenv, handler)
where 9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 10: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 11: doTryCatch(return(expr), name, parentenv, handler)
where 12: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 13: tryCatchList(expr, classes, parentenv, handlers)
where 14: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 15: test_code(desc, code, env = parent.frame())
where 16 at testthat/test_utilities.r#3: test_that("break down ICNARC code", {
expect_equivalent(icnarc.breakdown("1.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3.4.5", 4), "1.2.3.4")
expect_equivalent(icnarc.breakdown("10.2.3.4.5"), "10.2.3")
expect_equivalent(icnarc.breakdown("01.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2"), "1.2")
expect_equivalent(icnarc.breakdown("1"), "1")
expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
})
where 17: eval(code, test_env)
where 18: eval(code, test_env)
where 19: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 20: doTryCatch(return(expr), name, parentenv, handler)
where 21: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 22: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 23: doTryCatch(return(expr), name, parentenv, handler)
where 24: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 25: tryCatchList(expr, classes, parentenv, handlers)
where 26: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 27: test_code(NULL, exprs, env)
where 28: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
where 29: force(code)
where 30: doWithOneRestart(return(expr), restart)
where 31: withOneRestart(expr, restarts[[1L]])
where 32: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 33: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
{
reporter$start_file(basename(path))
lister$start_file(basename(path))
source_file(path, new.env(parent = env), chdir = TRUE,
wrap = wrap)
reporter$.end_context()
reporter$end_file()
})
where 34: FUN(X[[i]], ...)
where 35: lapply(paths, test_file, env = env, reporter = current_reporter,
start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
where 36: force(code)
where 37: doWithOneRestart(return(expr), restart)
where 38: withOneRestart(expr, restarts[[1L]])
where 39: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 40: with_reporter(reporter = current_reporter, results <- lapply(paths,
test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
load_helpers = FALSE, wrap = wrap))
where 41: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 42: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
wrap = wrap)
where 43: test_package_dir(package = package, test_path = test_path, filter = filter,
reporter = reporter, ..., stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 44: test_check("cleanEHR")
--- value of length: 2 type: logical ---
[1] FALSE FALSE
--- function from context ---
function (r, digits = 3)
{
cols <- strsplit(r, "[.]")
cols <- lapply(cols, function(x) {
x <- tryCatch(as.numeric(x), warning = function(w) {
return(NA)
})
if (length(x) < 5)
x <- c(x, rep(NA, 5 - length(x)))
if (length(x) > 5)
x <- x[1:5]
x
})
cols <- t(data.frame(cols))
rownames(cols) <- seq(nrow(cols))
cols <- cols[, 1:digits]
combine <- function(x) {
x <- x[!is.na(x)]
paste(x, collapse = ".")
}
if (digits == 1)
return(as.character(cols))
if (class(cols) == "numeric")
return(combine(cols))
else return(apply(cols, 1, combine))
}
<bytecode: 0x21cc298>
<environment: namespace:cleanEHR>
--- function search by body ---
Function icnarc.breakdown in namespace cleanEHR has this body.
----------- END OF FAILURE REPORT --------------
── 1. Error: break down ICNARC code (@test_utilities.r#14) ────────────────────
the condition has length > 1
Backtrace:
1. testthat::expect_equivalent(...)
4. cleanEHR:::icnarc.breakdown(c("1", "1.2.3.4"))
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 229 | SKIPPED: 15 | WARNINGS: 0 | FAILED: 1 ]
1. Error: break down ICNARC code (@test_utilities.r#14)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [13s/14s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(cleanEHR)
>
>
> test_check("cleanEHR")
----------- FAILURE REPORT --------------
--- failure: the condition has length > 1 ---
--- srcref ---
:
--- package (from environment) ---
cleanEHR
--- call from context ---
icnarc.breakdown(c("1", "1.2.3.4"))
--- call from argument ---
if (class(cols) == "numeric") return(combine(cols)) else return(apply(cols,
1, combine))
--- R stacktrace ---
where 1: icnarc.breakdown(c("1", "1.2.3.4"))
where 2: eval_bare(expr, quo_get_env(quo))
where 3: quasi_label(enquo(object), label, arg = "object")
where 4 at testthat/test_utilities.r#14: expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
where 5: eval(code, test_env)
where 6: eval(code, test_env)
where 7: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 8: doTryCatch(return(expr), name, parentenv, handler)
where 9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 10: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 11: doTryCatch(return(expr), name, parentenv, handler)
where 12: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 13: tryCatchList(expr, classes, parentenv, handlers)
where 14: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 15: test_code(desc, code, env = parent.frame())
where 16 at testthat/test_utilities.r#3: test_that("break down ICNARC code", {
expect_equivalent(icnarc.breakdown("1.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3.4.5", 4), "1.2.3.4")
expect_equivalent(icnarc.breakdown("10.2.3.4.5"), "10.2.3")
expect_equivalent(icnarc.breakdown("01.2.3.4.5"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2.3"), "1.2.3")
expect_equivalent(icnarc.breakdown("1.2"), "1.2")
expect_equivalent(icnarc.breakdown("1"), "1")
expect_equivalent(icnarc.breakdown(c("1", "1.2.3.4")), c("1",
"1.2.3"))
})
where 17: eval(code, test_env)
where 18: eval(code, test_env)
where 19: withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error)
where 20: doTryCatch(return(expr), name, parentenv, handler)
where 21: tryCatchOne(expr, names, parentenv, handlers[[1L]])
where 22: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
where 23: doTryCatch(return(expr), name, parentenv, handler)
where 24: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
names[nh], parentenv, handlers[[nh]])
where 25: tryCatchList(expr, classes, parentenv, handlers)
where 26: tryCatch(withCallingHandlers({
eval(code, test_env)
if (!handled && !is.null(test)) {
skip_empty()
}
}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
message = handle_message, error = handle_error), error = handle_fatal,
skip = function(e) {
})
where 27: test_code(NULL, exprs, env)
where 28: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
where 29: force(code)
where 30: doWithOneRestart(return(expr), restart)
where 31: withOneRestart(expr, restarts[[1L]])
where 32: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 33: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
{
reporter$start_file(basename(path))
lister$start_file(basename(path))
source_file(path, new.env(parent = env), chdir = TRUE,
wrap = wrap)
reporter$.end_context()
reporter$end_file()
})
where 34: FUN(X[[i]], ...)
where 35: lapply(paths, test_file, env = env, reporter = current_reporter,
start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
where 36: force(code)
where 37: doWithOneRestart(return(expr), restart)
where 38: withOneRestart(expr, restarts[[1L]])
where 39: withRestarts(testthat_abort_reporter = function() NULL, force(code))
where 40: with_reporter(reporter = current_reporter, results <- lapply(paths,
test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
load_helpers = FALSE, wrap = wrap))
where 41: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 42: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
wrap = wrap)
where 43: test_package_dir(package = package, test_path = test_path, filter = filter,
reporter = reporter, ..., stop_on_failure = stop_on_failure,
stop_on_warning = stop_on_warning, wrap = wrap)
where 44: test_check("cleanEHR")
--- value of length: 2 type: logical ---
[1] FALSE FALSE
--- function from context ---
function (r, digits = 3)
{
cols <- strsplit(r, "[.]")
cols <- lapply(cols, function(x) {
x <- tryCatch(as.numeric(x), warning = function(w) {
return(NA)
})
if (length(x) < 5)
x <- c(x, rep(NA, 5 - length(x)))
if (length(x) > 5)
x <- x[1:5]
x
})
cols <- t(data.frame(cols))
rownames(cols) <- seq(nrow(cols))
cols <- cols[, 1:digits]
combine <- function(x) {
x <- x[!is.na(x)]
paste(x, collapse = ".")
}
if (digits == 1)
return(as.character(cols))
if (class(cols) == "numeric")
return(combine(cols))
else return(apply(cols, 1, combine))
}
<bytecode: 0x2345208>
<environment: namespace:cleanEHR>
--- function search by body ---
Function icnarc.breakdown in namespace cleanEHR has this body.
----------- END OF FAILURE REPORT --------------
── 1. Error: break down ICNARC code (@test_utilities.r#14) ────────────────────
the condition has length > 1
Backtrace:
1. testthat::expect_equivalent(...)
4. cleanEHR:::icnarc.breakdown(c("1", "1.2.3.4"))
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 229 | SKIPPED: 15 | WARNINGS: 0 | FAILED: 1 ]
1. Error: break down ICNARC code (@test_utilities.r#14)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc