CRAN Package Check Results for Package BIGr

Last updated on 2026-05-24 11:53:53 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	0.7.2	28.74	276.37	305.11	OK
r-devel-linux-x86_64-debian-gcc	0.7.2	20.14	189.06	209.20	OK
r-devel-linux-x86_64-fedora-clang	0.7.2	58.00	459.74	517.74	OK
r-devel-linux-x86_64-fedora-gcc	0.7.2	54.00	465.20	519.20	OK
r-devel-windows-x86_64	0.7.2	30.00	364.00	394.00	OK
r-patched-linux-x86_64	0.7.2	30.95	255.87	286.82	OK
r-release-linux-x86_64	0.7.2	29.98	256.70	286.68	OK
r-release-macos-arm64	0.7.2	8.00	105.00	113.00	OK
r-release-macos-x86_64	0.7.2	21.00	515.00	536.00	OK
r-release-windows-x86_64	0.7.2	32.00	368.00	400.00	OK
r-oldrel-macos-arm64	0.7.2	7.00	106.00	113.00	OK
r-oldrel-macos-x86_64	0.7.2	21.00	286.00	307.00	ERROR
r-oldrel-windows-x86_64	0.7.2	46.00	491.00	537.00	OK

Check Details

Version: 0.7.2
Check: tests
Result: ERROR Running ‘testthat.R’ [29s/93s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(BIGr) > > test_check("BIGr") --- Parentage Assignment Summary --- Total progeny evaluated: 1 LOW_MARKERS : 1 (100.0%) Min markers threshold : 10 Error threshold : 5 % --- Parentage Assignment Results --- Progeny Male_Parent Female_Parent Mendelian_Error_Pct Markers_Tested <char> <char> <char> <char> <int> 1: child1 S1 D1 0.00 5 Assignment_Status <char> 1: LOW_MARKERS ID Concordance 1 ID1 91.67% 2 ID10 95.45% 3 ID11 90% 4 ID12 94.74% 5 ID13 100% 6 ID14 100% 7 ID15 100% 8 ID16 100% 9 ID17 100% 10 ID18 89.47% 11 ID19 93.75% 12 ID2 95.45% 13 ID20 100% 14 ID3 100% 15 ID4 100% 16 ID5 100% 17 ID6 73.68% 18 ID7 81.82% 19 ID8 100% 20 ID9 100% Saving _problems/test-madc2vcf_all-25.R Saving _problems/test-madc2vcf_all-80.R Saving _problems/test-madc2vcf_all-112.R Scanning file to determine attributes. File attributes: meta lines: 14 header_line: 15 variant count: 499 column count: 159 Meta line 14 read in. All meta lines processed. gt matrix initialized. Character matrix gt created. Character matrix gt rows: 499 Character matrix gt cols: 159 skip: 0 nrows: 499 row_num: 0 Processed variant: 499 All variants processed Scanning file to determine attributes. File attributes: meta lines: 14 header_line: 15 variant count: 499 column count: 159 Meta line 14 read in. All meta lines processed. gt matrix initialized. Character matrix gt created. Character matrix gt rows: 499 Character matrix gt cols: 159 skip: 0 nrows: 499 row_num: 0 Processed variant: 499 All variants processed Scanning file to determine attributes. File attributes: meta lines: 14 header_line: 15 variant count: 499 column count: 159 Meta line 14 read in. All meta lines processed. gt matrix initialized. Character matrix gt created. Character matrix gt rows: 499 Character matrix gt cols: 159 skip: 0 nrows: 499 row_num: 0 Processed variant: 499 All variants processed [ FAIL 3 | WARN 0 | SKIP 4 | PASS 250 ] ══ Skipped tests (4) ═══════════════════════════════════════════════════════════ • On CRAN (4): 'test-check_madc_sanity.R:2:3', 'test-madc2vcf_all.R:162:3', 'test-madc2vcf_multi.R:35:3', 'test-madc2vcf_targets.R:154:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-madc2vcf_all.R:16:3'): test madc offtargets ──────────────────── Error in `checkForRemoteErrors(val)`: 2 nodes produced errors; first error: 'recursive' must be a length-1 vector Backtrace: ▆ 1. └─BIGr::madc2vcf_all(...) at test-madc2vcf_all.R:16:3 2. └─BIGr:::loop_though_dartag_report(...) 3. └─parallel::parLapply(...) 4. ├─base::do.call(...) 5. └─parallel::clusterApply(...) 6. └─parallel:::staticClusterApply(cl, fun, length(x), argfun) 7. └─parallel:::checkForRemoteErrors(val) ── Error ('test-madc2vcf_all.R:75:3'): madc2vcf_all preserves comma-separated AD for biallelic targets ── Error in `checkForRemoteErrors(val)`: one node produced an error: 'recursive' must be a length-1 vector Backtrace: ▆ 1. └─BIGr::madc2vcf_all(...) at test-madc2vcf_all.R:75:3 2. └─BIGr:::loop_though_dartag_report(...) 3. └─parallel::parLapply(...) 4. ├─base::do.call(...) 5. └─parallel::clusterApply(...) 6. └─parallel:::staticClusterApply(cl, fun, length(x), argfun) 7. └─parallel:::checkForRemoteErrors(val) ── Failure ('test-madc2vcf_all.R:104:3'): madc2vcf_all accepts BI_markerID matches when CloneID does not match ── Expected `madc2vcf_all(...)` not to throw any errors. Actually got a <simpleError> with message: one node produced an error: 'recursive' must be a length-1 vector [ FAIL 3 | WARN 0 | SKIP 4 | PASS 250 ] Error: ! Test failures. Warning messages: 1: In for (pkg in package) { : closing unused connection 8 (<-localhost:11732) 2: In for (pkg in package) { : closing unused connection 7 (<-localhost:11732) 3: In for (pkg in package) { : closing unused connection 6 (<-localhost:11732) 4: In for (pkg in package) { : closing unused connection 5 (<-localhost:11732) Execution halted Flavor: r-oldrel-macos-x86_64