- using R Under development (unstable) (2024-06-26 r86840)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
Debian clang version 18.1.8 (1)
Debian flang-new version 18.1.8 (1)
- running under: Debian GNU/Linux trixie/sid
- using session charset: UTF-8
- checking for file ‘bold/DESCRIPTION’ ... OK
- this is package ‘bold’ version ‘1.3.0’
- package encoding: UTF-8
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking for hidden files and directories ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking serialization versions ... OK
- checking whether package ‘bold’ can be installed ... OK
See the install log for details.
- checking package directory ... OK
- checking for future file timestamps ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking for left-over files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking code files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... [1s/1s] OK
- checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
- checking whether the package can be unloaded cleanly ... [1s/1s] OK
- checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
- checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
- checking loading without being on the library search path ... [1s/1s] OK
- checking use of S3 registration ... OK
- checking dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... [11s/16s] OK
- checking Rd files ... [1s/1s] OK
- checking Rd metadata ... OK
- checking Rd line widths ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... [0s/0s] OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking examples ... [1s/1s] OK
- checking for unstated dependencies in ‘tests’ ... OK
- checking tests ... [23s/32s] ERROR
Running ‘test-all.R’ [23s/31s]
Running the tests in ‘tests/test-all.R’ failed.
Complete output:
> library(testthat)
> test_check('bold')
Loading required package: bold
[ FAIL 1 | WARN 17 | SKIP 59 | PASS 112 ]
══ Skipped tests (59) ══════════════════════════════════════════════════════════
• On CRAN (59): 'test-bold_get_attr.R:2:3', 'test-bold_identify.R:4:3',
'test-bold_identify.R:14:3', 'test-bold_identify.R:25:3',
'test-bold_identify.R:39:3', 'test-bold_seq.R:5:3', 'test-bold_seq.R:18:3',
'test-bold_seq.R:30:3', 'test-bold_seqspec.R:4:3',
'test-bold_seqspec.R:14:3', 'test-bold_seqspec.R:25:3',
'test-bold_seqspec.R:36:3', 'test-bold_seqspec.R:47:3',
'test-bold_specimens.R:4:3', 'test-bold_specimens.R:14:3',
'test-bold_specimens.R:24:3', 'test-bold_specimens.R:34:3',
'test-bold_stats.R:4:3', 'test-bold_stats.R:16:3', 'test-bold_stats.R:30:3',
'test-bold_stats.R:40:3', 'test-bold_stats.R:50:3', 'test-bold_tax_id.R:4:3',
'test-bold_tax_id.R:16:3', 'test-bold_tax_id.R:25:3',
'test-bold_tax_id.R:35:3', 'test-bold_tax_id.R:44:3',
'test-bold_tax_id.R:57:3', 'test-bold_tax_id.R:65:3',
'test-bold_tax_id.R:73:3', 'test-bold_tax_id.R:82:3',
'test-bold_tax_id.R:90:3', 'test-bold_tax_id.R:98:3',
'test-bold_tax_id.R:106:3', 'test-bold_tax_id.R:114:3',
'test-bold_tax_id2.R:4:3', 'test-bold_tax_id2.R:16:3',
'test-bold_tax_id2.R:25:3', 'test-bold_tax_id2.R:41:3',
'test-bold_tax_id2.R:56:3', 'test-bold_tax_id2.R:64:3',
'test-bold_tax_id2.R:72:3', 'test-bold_tax_id2.R:81:3',
'test-bold_tax_id2.R:90:3', 'test-bold_tax_id2.R:102:3',
'test-bold_tax_id2.R:114:3', 'test-bold_tax_id2.R:126:3',
'test-bold_tax_id2.R:134:3', 'test-bold_tax_name.R:4:3',
'test-bold_tax_name.R:13:3', 'test-bold_tax_name.R:22:3',
'test-bold_tax_name.R:43:3', 'test-bold_tax_name.R:53:3',
'test-bold_tax_name.R:68:3', 'test-bold_tax_name.R:79:3',
'test-bold_trace.R:4:3', 'test-bold_trace.R:17:3', 'test-bold_trace.R:30:3',
'test-bold_trace.R:42:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-bold_tax_id.R:125:3'): bold_tax_id fails well ──────────────────
<http_503/http_500/http_error/error/condition>
Error: Service Unavailable (HTTP 503)
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-bold_tax_id.R:125:3
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. └─bold::bold_tax_id(id = 88899, includeTree = 5)
7. └─base::lapply(...)
8. └─bold (local) FUN(X[[i]], ...)
9. └─bold:::.get_response_dep(...)
10. └─out$raise_for_status()
11. ├─fauxpas::http(self, behavior = "stop")
12. └─fauxpas:::http.HttpResponse(self, behavior = "stop")
13. └─tmp$do(response)
[ FAIL 1 | WARN 17 | SKIP 59 | PASS 112 ]
Error: Test failures
Execution halted
- checking PDF version of manual ... [6s/8s] OK
- checking HTML version of manual ... [1s/2s] OK
- checking for non-standard things in the check directory ... OK
- DONE
Status: 1 ERROR