Last updated on 2024-05-01 16:53:43 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| bold | 3 | 3 | 6 |
Current CRAN status: ERROR: 3, NOTE: 3, OK: 6
Version: 1.3.0
Check: tests
Result: ERROR
Running ‘test-all.R’ [21s/27s]
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 ──────────────────
Error: lexical error: invalid char in json text.
<!DOCTYPE html> <html class><!-
(right here) ------^
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. ├─bold:::b_rbind(...)
8. │ ├─data.table::setDF(...)
9. │ └─data.table::rbindlist(...)
10. └─base::mapply(...)
11. └─bold (local) `<fn>`(x = dots[[1L]][[1L]], y = dots[[2L]][[1L]], z = 5, w = "basic")
12. └─jsonlite::fromJSON(tt)
13. └─jsonlite:::parse_and_simplify(...)
14. └─jsonlite:::parseJSON(txt, bigint_as_char)
15. └─jsonlite:::parse_string(txt, bigint_as_char)
[ FAIL 1 | WARN 17 | SKIP 59 | PASS 112 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64
Version: 1.3.0
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘sangerseqR’
Flavors: r-release-macos-arm64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 1.3.0
Check: tests
Result: ERROR
Running 'test-all.R' [15s]
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 ──────────────────
Error: lexical error: invalid char in json text.
<!DOCTYPE html> <html class><!-
(right here) ------^
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. ├─bold:::b_rbind(...)
8. │ ├─data.table::setDF(...)
9. │ └─data.table::rbindlist(...)
10. └─base::mapply(...)
11. └─bold (local) `<fn>`(x = dots[[1L]][[1L]], y = dots[[2L]][[1L]], z = 5, w = "basic")
12. └─jsonlite::fromJSON(tt)
13. └─jsonlite:::parse_and_simplify(...)
14. └─jsonlite:::parseJSON(txt, bigint_as_char)
15. └─jsonlite:::parse_string(txt, bigint_as_char)
[ FAIL 1 | WARN 17 | SKIP 59 | PASS 112 ]
Error: Test failures
Execution halted
Flavor: r-release-windows-x86_64
Version: 1.3.0
Check: tests
Result: ERROR
Running 'test-all.R' [21s]
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 ──────────────────
Error: lexical error: invalid char in json text.
<!DOCTYPE html> <html class><!-
(right here) ------^
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. ├─bold:::b_rbind(...)
8. │ ├─data.table::setDF(...)
9. │ └─data.table::rbindlist(...)
10. └─base::mapply(...)
11. └─bold (local) `<fn>`(x = dots[[1L]][[1L]], y = dots[[2L]][[1L]], z = 5, w = "basic")
12. └─jsonlite::fromJSON(tt)
13. └─jsonlite:::parse_and_simplify(...)
14. └─jsonlite:::parseJSON(txt, bigint_as_char)
15. └─jsonlite:::parse_string(txt, bigint_as_char)
[ FAIL 1 | WARN 17 | SKIP 59 | PASS 112 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-windows-x86_64