Last updated on 2025-03-13 11:53:14 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.5 | 17.18 | 132.97 | 150.15 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.5 | 10.33 | 90.36 | 100.69 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.5 | 234.74 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.5 | 239.13 | OK | |||
| r-devel-macos-arm64 | 1.0.5 | 124.00 | OK | |||
| r-devel-macos-x86_64 | 1.0.5 | 192.00 | OK | |||
| r-devel-windows-x86_64 | 1.0.5 | 18.00 | 249.00 | 267.00 | ERROR | |
| r-patched-linux-x86_64 | 1.0.5 | OK | ||||
| r-release-linux-x86_64 | 1.0.5 | 15.35 | 121.29 | 136.64 | OK | |
| r-release-macos-arm64 | 1.0.5 | 116.00 | OK | |||
| r-release-macos-x86_64 | 1.0.5 | 219.00 | OK | |||
| r-release-windows-x86_64 | 1.0.5 | 19.00 | 226.00 | 245.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.5 | OK | ||||
| r-oldrel-macos-x86_64 | 1.0.5 | 210.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.0.5 | 26.00 | 245.00 | 271.00 | OK |
Version: 1.0.5
Check: examples
Result: ERROR
Running examples in 'neotoma2-Ex.R' failed
The error most likely occurred in:
> ### Name: cite_data,sites-method
> ### Title: Obtain data citations from multiple records.
> ### Aliases: cite_data,sites-method
>
> ### ** Examples
>
> {
+ ds <- get_datasets(1)
+ cite_data(ds)
+ }
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in neotoma2::parseURL(base_url, ...) : object 'response' not found
Calls: get_datasets -> get_datasets.numeric -> <Anonymous>
Execution halted
Flavor: r-devel-windows-x86_64
Version: 1.0.5
Check: tests
Result: ERROR
Running 'testthat.R' [95s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(neotoma2)
Attaching package: 'neotoma2'
The following object is masked from 'package:stats':
filter
>
> test_check("neotoma2")
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
Error in curl::curl_fetch_memory(url, handle = handle) :
Timeout was reached [api.neotomadb.org]: SSL/TLS connection timeout
[ FAIL 8 | WARN 0 | SKIP 48 | PASS 10 ]
══ Skipped tests (48) ══════════════════════════════════════════════════════════
• On CRAN (48): 'test-toJSON.R:2:3', 'test_c.R:10:3',
'test_check_contacts.R:10:3', 'test_chroncontrols.R:5:3',
'test_chroncontrols.R:22:3', 'test_chroncontrols.R:36:3', 'test_clean.R:5:3',
'test_datasets.R:3:3', 'test_datasets.R:19:3', 'test_datasets.R:39:3',
'test_datasets.R:86:3', 'test_datasets.R:109:3', 'test_download.R:3:3',
'test_download.R:32:3', 'test_examples.R:3:3', 'test_filter.R:4:3',
'test_filter.R:27:3', 'test_filter.R:50:3', 'test_filter.R:74:3',
'test_filter.R:111:3', 'test_filter.R:138:3', 'test_filter.R:166:3',
'test_filter.R:192:3', 'test_filter.R:208:3', 'test_filter.R:223:3',
'test_generaltests.R:6:3', 'test_generaltests.R:17:3',
'test_generaltests.R:22:3', 'test_generaltests.R:40:3',
'test_generaltests.R:70:3', 'test_generaltests.R:78:5',
'test_generaltests.R:99:3', 'test_methods.R:3:3', 'test_plotLeaflet.r:6:3',
'test_plotLeaflet.r:18:3', 'test_samples.R:11:3', 'test_setsample.R:8:3',
'test_setsite.r:8:3', 'test_sites.R:9:3', 'test_sites.R:21:3',
'test_sites.R:37:3', 'test_sites.R:49:3', 'test_sites.R:62:3',
'test_sites.R:90:3', 'test_specimens.R:3:3', 'test_specimens.R:11:3',
'test_specimens.R:18:3', 'test_toWide.R:10:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-get_contacts.R:2:3'): Non integer x returns nothing: ───────────
Error in `parseURL(baseURL, ...)`: object 'response' not found
Backtrace:
▆
1. ├─neotoma2::get_contacts(x = "Goring") at test-get_contacts.R:2:3
2. ├─neotoma2:::get_contacts.default(x = "Goring")
3. │ ├─parseURL(baseURL, ...) %>% cleanNULL()
4. │ └─neotoma2::parseURL(baseURL, ...)
5. └─neotoma2:::cleanNULL(.)
6. └─base::rapply(...)
── Error ('test-get_contacts.R:7:3'): Integer x returns sets of contacts: ──────
Error in `parseURL(baseURL)`: object 'response' not found
Backtrace:
▆
1. ├─neotoma2::get_contacts(x = 1) at test-get_contacts.R:7:3
2. ├─neotoma2:::get_contacts.numeric(x = 1)
3. │ ├─parseURL(baseURL) %>% cleanNULL()
4. │ └─neotoma2::parseURL(baseURL)
5. └─neotoma2:::cleanNULL(.)
6. └─base::rapply(...)
── Error ('test-get_table.R:6:3'): Call a single database table: ───────────────
Error in `parseURL(paste0("dbtables/table?table=", x, "&limit=", limit,
"&offset=", offset))`: object 'response' not found
Backtrace:
▆
1. ├─testthat::expect_is(get_table("agetypes"), "data.frame") at test-get_table.R:6:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─neotoma2::get_table("agetypes")
5. └─neotoma2::parseURL(...)
── Error ('test-get_table.R:11:3'): We can apply the limits for get_table() ────
Error in `parseURL(paste0("dbtables/table?table=", x, "&limit=", limit,
"&offset=", offset))`: object 'response' not found
Backtrace:
▆
1. ├─testthat::expect_equal(...) at test-get_table.R:11:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─base::nrow(get_table("agetypes", limit = 1))
5. └─neotoma2::get_table("agetypes", limit = 1)
6. └─neotoma2::parseURL(...)
── Error ('test-get_table.R:16:3'): Limit and offsets work for the get_table() call ──
Error in `parseURL(paste0("dbtables/table?table=", x, "&limit=", limit,
"&offset=", offset))`: object 'response' not found
Backtrace:
▆
1. ├─testthat::expect_false(...) at test-get_table.R:16:3
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─rlang::hash(get_table("agetypes", limit = 1))
5. └─neotoma2::get_table("agetypes", limit = 1)
6. └─neotoma2::parseURL(...)
── Error ('test-ping.R:5:3'): The Pings work ───────────────────────────────────
Error in `ping_head$status_code`: $ operator is invalid for atomic vectors
Backtrace:
▆
1. └─testthat::expect_equal(ping_head$status_code, ping_call$status_code) at test-ping.R:5:3
2. └─testthat::quasi_label(enquo(object), label, arg = "object")
3. └─rlang::eval_bare(expr, quo_get_env(quo))
── Error ('test_generaltests.R:65:3'): A faunmap dataset with some contacts actually works ──
Error in `parseURL(base_url, ...)`: object 'response' not found
Backtrace:
▆
1. ├─neotoma2::get_downloads(7032) at test_generaltests.R:65:3
2. └─neotoma2:::get_downloads.numeric(7032)
3. └─neotoma2::parseURL(base_url, ...)
── Error ('test_generaltests.R:115:3'): Testing the publications calls. ────────
Error in `parseURL(baseURL, ...)`: object 'response' not found
Backtrace:
▆
1. ├─neotoma2::get_publications() at test_generaltests.R:115:3
2. ├─neotoma2:::get_publications.default()
3. │ ├─... %>% pluck("result")
4. │ └─neotoma2::parseURL(baseURL, ...)
5. ├─purrr::pluck(., "result")
6. │ └─purrr:::pluck_raw(.x, list2(...), .default = .default)
7. ├─purrr::pluck(., "data")
8. │ └─purrr:::pluck_raw(.x, list2(...), .default = .default)
9. └─neotoma2:::cleanNULL(.)
10. └─base::rapply(...)
[ FAIL 8 | WARN 0 | SKIP 48 | PASS 10 ]
Error: Test failures
Execution halted
Flavor: r-devel-windows-x86_64
Version: 1.0.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'neotoma2-package.Rmd' using rmarkdown
Quitting from lines 77-84 [getSiteBySiteID] (neotoma2-package.Rmd)
Error: processing vignette 'neotoma2-package.Rmd' failed with diagnostics:
object 'response' not found
--- failed re-building 'neotoma2-package.Rmd'
SUMMARY: processing the following file failed:
'neotoma2-package.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-x86_64