CRAN Package Check Results for Package BIGr

Last updated on 2025-06-23 21:50:27 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	0.5.5	26.54	253.18	279.72	OK
r-devel-linux-x86_64-debian-gcc	0.5.5	19.07	179.96	199.03	OK
r-devel-linux-x86_64-fedora-clang	0.5.5			429.55	OK
r-devel-linux-x86_64-fedora-gcc	0.5.5			421.67	OK
r-devel-windows-x86_64	0.5.5	27.00	287.00	314.00	OK
r-patched-linux-x86_64	0.5.5	28.48	235.53	264.01	OK
r-release-linux-x86_64	0.5.5	27.70	235.10	262.80	OK
r-release-macos-arm64	0.5.5			117.00	ERROR
r-release-macos-x86_64	0.5.5			262.00	ERROR
r-release-windows-x86_64	0.5.5	28.00	287.00	315.00	OK
r-oldrel-macos-arm64	0.5.5			151.00	OK
r-oldrel-macos-x86_64	0.5.5			11.00	ERROR
r-oldrel-windows-x86_64	0.5.5	38.00	379.00	417.00	OK

Check Details

Version: 0.5.5
Check: tests
Result: ERROR Running ‘testthat.R’ [10s/19s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(BIGr) > > test_check("BIGr") The Ref_0001 sequence had to be added for: 0 tags The Alt_0002 sequence had to be added for: 1 tags Tags discarded due to lack of Ref_0001 sequence: 0 tags Tags discarded due to lack of Alt_0002 sequence: 0 tags 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 1 | WARN 0 | SKIP 0 | PASS 58 ] ══ 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) [ FAIL 1 | WARN 0 | SKIP 0 | PASS 58 ] Error: Test failures In addition: Warning messages: 1: In sort.int(x, na.last = na.last, decreasing = decreasing, ...) : closing unused connection 6 (<-localhost:11117) 2: In sort.int(x, na.last = na.last, decreasing = decreasing, ...) : closing unused connection 5 (<-localhost:11117) Execution halted Flavor: r-release-macos-arm64

Version: 0.5.5
Check: tests
Result: ERROR Running ‘testthat.R’ [16s/41s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(BIGr) > > test_check("BIGr") The Ref_0001 sequence had to be added for: 0 tags The Alt_0002 sequence had to be added for: 1 tags Tags discarded due to lack of Ref_0001 sequence: 0 tags Tags discarded due to lack of Alt_0002 sequence: 0 tags 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 1 | WARN 0 | SKIP 0 | PASS 58 ] ══ 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) [ FAIL 1 | WARN 0 | SKIP 0 | PASS 58 ] Error: Test failures In addition: Warning messages: 1: closing unused connection 6 (<-localhost:11508) 2: closing unused connection 5 (<-localhost:11508) Execution halted Flavor: r-release-macos-x86_64

Version: 0.5.5
Check: package dependencies
Result: ERROR Package required but not available: ‘pwalign’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavor: r-oldrel-macos-x86_64