CRAN Package Check Results for Package BIGr

Last updated on 2026-08-03 23:50:26 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	0.7.2	25.97	274.23	300.20	OK
r-devel-linux-x86_64-debian-gcc	0.7.2	22.84	196.30	219.14	NOTE
r-devel-linux-x86_64-fedora-clang	0.7.2	50.00	416.19	466.19	OK
r-devel-linux-x86_64-fedora-gcc	0.7.2	22.00	187.49	209.49	OK
r-devel-windows-x86_64	0.7.2	31.00	368.00	399.00	OK
r-patched-linux-x86_64	0.7.2	29.40	255.82	285.22	OK
r-release-linux-x86_64	0.7.2	30.01	258.71	288.72	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	365.00	397.00	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	472.00	493.00	ERROR
r-oldrel-windows-x86_64	0.7.2	43.00	495.00	538.00	OK

Check Details

Version: 0.7.2
Check: for new files in some other directories
Result: NOTE Found the following files/directories: ‘~/tmp/scratch/Rtmp04rdh6’ ‘~/tmp/scratch/Rtmp17LLQN’ ‘~/tmp/scratch/Rtmp1QuEdY’ ‘~/tmp/scratch/Rtmp1qWke6’ ‘~/tmp/scratch/Rtmp2AZMNI’ ‘~/tmp/scratch/Rtmp2E89B5’ ‘~/tmp/scratch/Rtmp2jZtuL’ ‘~/tmp/scratch/Rtmp2ml2tE’ ‘~/tmp/scratch/Rtmp38iIOU’ ‘~/tmp/scratch/Rtmp3NJE2K’ ‘~/tmp/scratch/Rtmp3yb1XF’ ‘~/tmp/scratch/Rtmp4Nu5jM’ ‘~/tmp/scratch/Rtmp4n4hWp’ ‘~/tmp/scratch/Rtmp4ntDPg’ ‘~/tmp/scratch/Rtmp4ulY2Z’ ‘~/tmp/scratch/Rtmp55hlqI’ ‘~/tmp/scratch/Rtmp5EA3Jb’ ‘~/tmp/scratch/Rtmp5Hm0xp’ ‘~/tmp/scratch/Rtmp5s482F’ ‘~/tmp/scratch/Rtmp7EkKlT’ ‘~/tmp/scratch/Rtmp7Ltp7g’ ‘~/tmp/scratch/Rtmp80DhcV’ ‘~/tmp/scratch/Rtmp82ElQE’ ‘~/tmp/scratch/Rtmp8AC5P4’ ‘~/tmp/scratch/Rtmp8WYo4T’ ‘~/tmp/scratch/Rtmp8iFmqz’ ‘~/tmp/scratch/RtmpAZZxUv’ ‘~/tmp/scratch/RtmpAjMpoB’ ‘~/tmp/scratch/RtmpAz03wm’ ‘~/tmp/scratch/RtmpBujzqV’ ‘~/tmp/scratch/RtmpDRqLd2’ ‘~/tmp/scratch/RtmpDSOLd8’ ‘~/tmp/scratch/RtmpEAs1EQ’ ‘~/tmp/scratch/RtmpEFrNGO’ ‘~/tmp/scratch/RtmpEZGxfS’ ‘~/tmp/scratch/RtmpF04BSp’ ‘~/tmp/scratch/RtmpFjn4Dc’ ‘~/tmp/scratch/RtmpGnK4mU’ ‘~/tmp/scratch/RtmpH1rbLU’ ‘~/tmp/scratch/RtmpIEEslW’ ‘~/tmp/scratch/RtmpIEdeSU’ ‘~/tmp/scratch/RtmpIJKaQx’ ‘~/tmp/scratch/RtmpITNHKM’ ‘~/tmp/scratch/RtmpIsVq3i’ ‘~/tmp/scratch/RtmpItrPaT’ ‘~/tmp/scratch/RtmpJvSnYD’ ‘~/tmp/scratch/RtmpKer2u8’ ‘~/tmp/scratch/RtmpKett89’ ‘~/tmp/scratch/RtmpKmJ3ZT’ ‘~/tmp/scratch/RtmpKwWIYk’ ‘~/tmp/scratch/RtmpLcEdiu’ ‘~/tmp/scratch/RtmpLdlGZZ’ ‘~/tmp/scratch/RtmpLgeA3x’ ‘~/tmp/scratch/RtmpLjEEwf’ ‘~/tmp/scratch/RtmpMK0ckQ’ ‘~/tmp/scratch/RtmpMe0Q6I’ ‘~/tmp/scratch/RtmpMwXRQK’ ‘~/tmp/scratch/RtmpNGFnK1’ ‘~/tmp/scratch/RtmpNJ7QKW’ ‘~/tmp/scratch/RtmpNNjw4C’ ‘~/tmp/scratch/RtmpNjBGFY’ ‘~/tmp/scratch/RtmpNwXFal’ ‘~/tmp/scratch/RtmpO9fTOR’ ‘~/tmp/scratch/RtmpONcZU5’ ‘~/tmp/scratch/RtmpOcrRjj’ ‘~/tmp/scratch/RtmpOfpE2U’ ‘~/tmp/scratch/RtmpPWNfST’ ‘~/tmp/scratch/RtmpPmnKux’ ‘~/tmp/scratch/RtmpQ2uM9T’ ‘~/tmp/scratch/RtmpQAyuzs’ ‘~/tmp/scratch/RtmpQOWvSh’ ‘~/tmp/scratch/RtmpR1hXNN’ ‘~/tmp/scratch/RtmpR6FZIu’ ‘~/tmp/scratch/RtmpRDKGUk’ ‘~/tmp/scratch/RtmpRKQzEX’ ‘~/tmp/scratch/RtmpSNTGH0’ ‘~/tmp/scratch/RtmpSOxu0R’ ‘~/tmp/scratch/RtmpSRGff3’ ‘~/tmp/scratch/RtmpSSEK32’ ‘~/tmp/scratch/RtmpSl9pzz’ ‘~/tmp/scratch/RtmpTFWhxU’ ‘~/tmp/scratch/RtmpTPT6Af’ ‘~/tmp/scratch/RtmpTiKSAx’ ‘~/tmp/scratch/RtmpTv3w1a’ ‘~/tmp/scratch/RtmpU1uAgl’ ‘~/tmp/scratch/RtmpU3nBqA’ ‘~/tmp/scratch/RtmpUSb5YS’ ‘~/tmp/scratch/RtmpUmeElL’ ‘~/tmp/scratch/RtmpV444NZ’ ‘~/tmp/scratch/RtmpV7bdRP’ ‘~/tmp/scratch/RtmpVR7IQQ’ ‘~/tmp/scratch/RtmpVsLmNG’ ‘~/tmp/scratch/RtmpWp0Wcl’ ‘~/tmp/scratch/RtmpWxBf8p’ ‘~/tmp/scratch/RtmpWxUq5x’ ‘~/tmp/scratch/RtmpWyBZ6s’ ‘~/tmp/scratch/RtmpXYTr8u’ ‘~/tmp/scratch/RtmpYLE5R5’ ‘~/tmp/scratch/RtmpYUTJLV’ ‘~/tmp/scratch/RtmpYfZGuA’ ‘~/tmp/scratch/RtmpYy5oTX’ ‘~/tmp/scratch/RtmpZGtRDy’ ‘~/tmp/scratch/RtmpZYFXcz’ ‘~/tmp/scratch/Rtmpa0bDSp’ ‘~/tmp/scratch/RtmpaSrEef’ ‘~/tmp/scratch/RtmpaqqWBW’ ‘~/tmp/scratch/RtmpavHEa2’ ‘~/tmp/scratch/RtmpcE8L2a’ ‘~/tmp/scratch/RtmpcdAZwB’ ‘~/tmp/scratch/RtmpcqVSLj’ ‘~/tmp/scratch/Rtmpd0eZDb’ ‘~/tmp/scratch/RtmpdFa33R’ ‘~/tmp/scratch/RtmpdOOS18’ ‘~/tmp/scratch/Rtmpdfo0Nw’ ‘~/tmp/scratch/RtmpeMhYMx’ ‘~/tmp/scratch/RtmpeaEE2S’ ‘~/tmp/scratch/RtmpeeltAT’ ‘~/tmp/scratch/RtmpfDiDsz’ ‘~/tmp/scratch/RtmpfLHUqk’ ‘~/tmp/scratch/RtmpfyAng0’ ‘~/tmp/scratch/RtmphcF6R2’ ‘~/tmp/scratch/RtmphcNwRV’ ‘~/tmp/scratch/RtmphwsoNx’ ‘~/tmp/scratch/Rtmpi50cTg’ ‘~/tmp/scratch/RtmpiSiBGN’ ‘~/tmp/scratch/RtmpjDfuU6’ ‘~/tmp/scratch/Rtmpjxscsk’ ‘~/tmp/scratch/Rtmpl4Z7Cx’ ‘~/tmp/scratch/Rtmpl8SsVv’ ‘~/tmp/scratch/RtmplANkib’ ‘~/tmp/scratch/RtmplBhwM3’ ‘~/tmp/scratch/RtmplbShJK’ ‘~/tmp/scratch/Rtmplpc3B3’ ‘~/tmp/scratch/Rtmpm45ZtT’ ‘~/tmp/scratch/RtmpmGe6gL’ ‘~/tmp/scratch/RtmpmJUHrn’ ‘~/tmp/scratch/RtmpnB1Ope’ ‘~/tmp/scratch/Rtmpnrw6mU’ ‘~/tmp/scratch/RtmpobGqa3’ ‘~/tmp/scratch/RtmppNzqOz’ ‘~/tmp/scratch/RtmppXkeIv’ ‘~/tmp/scratch/RtmppYQj2a’ ‘~/tmp/scratch/Rtmpq9R8v0’ ‘~/tmp/scratch/RtmpqWTnj0’ ‘~/tmp/scratch/Rtmpqa7Yar’ ‘~/tmp/scratch/RtmpqnAN9n’ ‘~/tmp/scratch/RtmpqnkWPr’ ‘~/tmp/scratch/RtmpqohJ6Z’ ‘~/tmp/scratch/Rtmpqy61ul’ ‘~/tmp/scratch/RtmprCxb2A’ ‘~/tmp/scratch/RtmprvkhLb’ ‘~/tmp/scratch/RtmpsihOpR’ ‘~/tmp/scratch/RtmpsrVu8j’ ‘~/tmp/scratch/RtmptSRO5L’ ‘~/tmp/scratch/RtmptZ3whL’ ‘~/tmp/scratch/RtmptdnX4h’ ‘~/tmp/scratch/RtmptizNpJ’ ‘~/tmp/scratch/RtmptqBYJN’ ‘~/tmp/scratch/RtmpttOv58’ ‘~/tmp/scratch/RtmpuFOc5q’ ‘~/tmp/scratch/RtmpuVOXCt’ ‘~/tmp/scratch/Rtmpuiwk6t’ ‘~/tmp/scratch/RtmpuoBsro’ ‘~/tmp/scratch/RtmpvJgwit’ ‘~/tmp/scratch/Rtmpw3MSS4’ ‘~/tmp/scratch/RtmpxBKogX’ ‘~/tmp/scratch/RtmpxOL9ZI’ ‘~/tmp/scratch/Rtmpxhi1NV’ ‘~/tmp/scratch/RtmpxjjzyH’ ‘~/tmp/scratch/Rtmpym1xeA’ ‘~/tmp/scratch/Rtmpz63ZuS’ ‘~/tmp/scratch/RtmpzKMIQx’ ‘~/tmp/scratch/ccdVF6Ks.s’ ‘~/tmp/scratch/xvfb-run.09RZHr’ ‘~/tmp/scratch/xvfb-run.1VdHMO’ ‘~/tmp/scratch/xvfb-run.2SaQKX’ ‘~/tmp/scratch/xvfb-run.33kHjo’ ‘~/tmp/scratch/xvfb-run.3EHB0O’ ‘~/tmp/scratch/xvfb-run.3TGzow’ ‘~/tmp/scratch/xvfb-run.49FtTq’ ‘~/tmp/scratch/xvfb-run.4OAwrz’ ‘~/tmp/scratch/xvfb-run.5RcMQ9’ ‘~/tmp/scratch/xvfb-run.6Ro8OG’ ‘~/tmp/scratch/xvfb-run.6vJyOs’ ‘~/tmp/scratch/xvfb-run.85AcBv’ ‘~/tmp/scratch/xvfb-run.9Hn303’ ‘~/tmp/scratch/xvfb-run.9Vb4MC’ ‘~/tmp/scratch/xvfb-run.9lrQnj’ ‘~/tmp/scratch/xvfb-run.9ttXD9’ ‘~/tmp/scratch/xvfb-run.B1Ryl3’ ‘~/tmp/scratch/xvfb-run.BOxIYo’ ‘~/tmp/scratch/xvfb-run.ChgbAc’ ‘~/tmp/scratch/xvfb-run.GuwkMF’ ‘~/tmp/scratch/xvfb-run.HVZ6ME’ ‘~/tmp/scratch/xvfb-run.I13SqN’ ‘~/tmp/scratch/xvfb-run.KorNU6’ ‘~/tmp/scratch/xvfb-run.KwsAQY’ ‘~/tmp/scratch/xvfb-run.Lgto7w’ ‘~/tmp/scratch/xvfb-run.LzuSm8’ ‘~/tmp/scratch/xvfb-run.MiMeI5’ ‘~/tmp/scratch/xvfb-run.Mjo2r6’ ‘~/tmp/scratch/xvfb-run.NORnPQ’ ‘~/tmp/scratch/xvfb-run.OYJ8LW’ ‘~/tmp/scratch/xvfb-run.PYJNwj’ ‘~/tmp/scratch/xvfb-run.QL8l80’ ‘~/tmp/scratch/xvfb-run.RZGSSq’ ‘~/tmp/scratch/xvfb-run.Rdt4FC’ ‘~/tmp/scratch/xvfb-run.RsiErK’ ‘~/tmp/scratch/xvfb-run.TGkkxC’ ‘~/tmp/scratch/xvfb-run.TtxZMf’ ‘~/tmp/scratch/xvfb-run.UW4AaN’ ‘~/tmp/scratch/xvfb-run.VOAlfx’ ‘~/tmp/scratch/xvfb-run.Vl4HXt’ ‘~/tmp/scratch/xvfb-run.YbVBwL’ ‘~/tmp/scratch/xvfb-run.Ztjk2Q’ ‘~/tmp/scratch/xvfb-run.aO0qUG’ ‘~/tmp/scratch/xvfb-run.btFcqJ’ ‘~/tmp/scratch/xvfb-run.bw0ZZr’ ‘~/tmp/scratch/xvfb-run.dNIAyA’ ‘~/tmp/scratch/xvfb-run.e21HRW’ ‘~/tmp/scratch/xvfb-run.eF2ayg’ ‘~/tmp/scratch/xvfb-run.eHVuq2’ ‘~/tmp/scratch/xvfb-run.fNANyq’ ‘~/tmp/scratch/xvfb-run.fSg1Sj’ ‘~/tmp/scratch/xvfb-run.fnd6So’ ‘~/tmp/scratch/xvfb-run.gMbynU’ ‘~/tmp/scratch/xvfb-run.gZxhR3’ ‘~/tmp/scratch/xvfb-run.h4behY’ ‘~/tmp/scratch/xvfb-run.hyXawV’ ‘~/tmp/scratch/xvfb-run.iFvP7R’ ‘~/tmp/scratch/xvfb-run.jeHYFS’ ‘~/tmp/scratch/xvfb-run.nKL2Gu’ ‘~/tmp/scratch/xvfb-run.nLnKRd’ ‘~/tmp/scratch/xvfb-run.nSna1q’ ‘~/tmp/scratch/xvfb-run.ni2EnM’ ‘~/tmp/scratch/xvfb-run.nnRuC1’ ‘~/tmp/scratch/xvfb-run.pVxWWO’ ‘~/tmp/scratch/xvfb-run.pd7Q6J’ ‘~/tmp/scratch/xvfb-run.qbstiU’ ‘~/tmp/scratch/xvfb-run.qzBiFp’ ‘~/tmp/scratch/xvfb-run.r88Ot7’ ‘~/tmp/scratch/xvfb-run.sF8yIy’ ‘~/tmp/scratch/xvfb-run.t0Cyd9’ ‘~/tmp/scratch/xvfb-run.tXZ3cE’ ‘~/tmp/scratch/xvfb-run.u5Mjl6’ ‘~/tmp/scratch/xvfb-run.vXJil6’ ‘~/tmp/scratch/xvfb-run.wNL27I’ ‘~/tmp/scratch/xvfb-run.wP3nc9’ ‘~/tmp/scratch/xvfb-run.xN0Zsn’ ‘~/tmp/scratch/xvfb-run.y5tPtS’ ‘~/tmp/scratch/xvfb-run.yl4uK5’ ‘~/tmp/scratch/xvfb-run.zO0elv’ ‘~/tmp/scratch/xvfb-run.zOZpLe’ ‘~/tmp/scratch/xvfb-run.zb3Y58’ Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.7.2
Check: tests
Result: ERROR Running ‘testthat.R’ [30s/152s] 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 (nme in names(lhs)) { : closing unused connection 8 (<-localhost:11667) 2: In for (nme in names(lhs)) { : closing unused connection 7 (<-localhost:11667) 3: In for (nme in names(lhs)) { : closing unused connection 6 (<-localhost:11667) 4: In for (nme in names(lhs)) { : closing unused connection 5 (<-localhost:11667) Execution halted Flavor: r-oldrel-macos-x86_64