Last updated on 2026-04-07 01:52:11 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.6.2 | 28.43 | 255.62 | 284.05 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.6.2 | 19.59 | 176.72 | 196.31 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.6.2 | 48.00 | 382.63 | 430.63 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.6.2 | 48.00 | ERROR | |||
| r-devel-macos-arm64 | 0.6.2 | 7.00 | 81.00 | 88.00 | OK | |
| r-devel-windows-x86_64 | 0.6.2 | 28.00 | 320.00 | 348.00 | OK | |
| r-patched-linux-x86_64 | 0.6.2 | 26.23 | 234.56 | 260.79 | OK | |
| r-release-linux-x86_64 | 0.6.2 | 24.82 | 232.94 | 257.76 | OK | |
| r-release-macos-arm64 | 0.6.2 | 11.00 | 78.00 | 89.00 | ERROR | |
| r-release-macos-x86_64 | 0.6.2 | 18.00 | 253.00 | 271.00 | ERROR | |
| r-release-windows-x86_64 | 0.6.2 | 28.00 | 318.00 | 346.00 | OK | |
| r-oldrel-macos-arm64 | 0.6.2 | OK | ||||
| r-oldrel-macos-x86_64 | 0.6.2 | 11.00 | ERROR | |||
| r-oldrel-windows-x86_64 | 0.6.2 | 39.00 | 426.00 | 465.00 | OK |
Version: 0.6.2
Check: Rd \usage sections
Result: NOTE
Error: there is no package called ‘Rcpp’
Call sequence:
11: doWithOneRestart(return(expr), restart)
10: withOneRestart(expr, restarts[[1L]])
9: withRestarts(stop(cond), retry_loadNamespace = function() NULL)
8: loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
7: asNamespace(ns)
6: namespaceImportFrom(ns, loadNamespace(j <- i[[1L]], c(lib.loc,
.libPaths()), versionCheck = vI[[j]]), i[[2L]], from = package)
5: loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
4: namespaceImport(ns, loadNamespace(i, c(lib.loc, .libPaths()),
versionCheck = vI[[i]]), from = package)
3: loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]])
2: namespaceImport(ns, loadNamespace(i, c(lib.loc, .libPaths()),
versionCheck = vI[[i]]), from = package)
1: loadNamespace(package, lib.loc)
Execution halted
The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.6.2
Check: examples
Result: ERROR
Running examples in ‘BIGr-Ex.R’ failed
The error occurred in:
R Under development (unstable) (2026-04-04 r89789) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> pkgname <- "BIGr"
> source(file.path(R.home("share"), "R", "examples-header.R"))
> options(warn = 1)
> library('BIGr')
Error: package or namespace load failed for ‘BIGr’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
there is no package called ‘Rcpp’
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.6.2
Check: tests
Result: ERROR
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(BIGr)
Error: package or namespace load failed for 'BIGr' in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):
there is no package called 'Rcpp'
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.6.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [10s/27s]
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
Saving _problems/test-madc2vcf_all-25.R
Saving _problems/test-madc2vcf_targets-78.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 2 | WARN 0 | SKIP 0 | PASS 88 ]
══ 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_targets.R:75:3'): bottom strand markers have correct REF/ALT ──
Error in `checkForRemoteErrors(val)`: one node produced an error: 'recursive' must be a length-1 vector
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-madc2vcf_targets.R:75:3
2. │ └─base::withCallingHandlers(...)
3. └─BIGr::madc2vcf_all(...)
4. └─BIGr:::loop_though_dartag_report(...)
5. └─parallel::parLapply(...)
6. ├─base::do.call(...)
7. └─parallel::clusterApply(...)
8. └─parallel:::staticClusterApply(cl, fun, length(x), argfun)
9. └─parallel:::checkForRemoteErrors(val)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 88 ]
Error:
! Test failures.
Warning messages:
1: closing unused connection 7 (<-localhost:11791)
2: closing unused connection 6 (<-localhost:11791)
3: closing unused connection 5 (<-localhost:11791)
Execution halted
Flavor: r-release-macos-arm64
Version: 0.6.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [17s/59s]
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
Saving _problems/test-madc2vcf_all-25.R
Saving _problems/test-madc2vcf_targets-78.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 2 | WARN 0 | SKIP 0 | PASS 88 ]
══ 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_targets.R:75:3'): bottom strand markers have correct REF/ALT ──
Error in `checkForRemoteErrors(val)`: one node produced an error: 'recursive' must be a length-1 vector
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-madc2vcf_targets.R:75:3
2. │ └─base::withCallingHandlers(...)
3. └─BIGr::madc2vcf_all(...)
4. └─BIGr:::loop_though_dartag_report(...)
5. └─parallel::parLapply(...)
6. ├─base::do.call(...)
7. └─parallel::clusterApply(...)
8. └─parallel:::staticClusterApply(cl, fun, length(x), argfun)
9. └─parallel:::checkForRemoteErrors(val)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 88 ]
Error:
! Test failures.
Warning messages:
1: In for (i in seq_len(n)) { :
closing unused connection 6 (<-localhost:11944)
2: In for (i in seq_len(n)) { :
closing unused connection 5 (<-localhost:11944)
3: In if (!is.null(partial)) .NotYetUsed("partial != NULL") :
closing unused connection 5 (<-localhost:11944)
Execution halted
Flavor: r-release-macos-x86_64
Version: 0.6.2
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