Last updated on 2025-08-03 12:50:09 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.5.5 | 28.58 | 252.18 | 280.76 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.5.5 | 19.06 | 176.98 | 196.04 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.5.5 | 429.33 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.5.5 | 411.61 | OK | |||
| r-devel-windows-x86_64 | 0.5.5 | 28.00 | 289.00 | 317.00 | OK | |
| r-patched-linux-x86_64 | 0.5.5 | 26.31 | 232.88 | 259.19 | OK | |
| r-release-linux-x86_64 | 0.5.5 | 26.73 | 232.21 | 258.94 | OK | |
| r-release-macos-arm64 | 0.5.5 | 104.00 | ERROR | |||
| r-release-macos-x86_64 | 0.5.5 | 235.00 | ERROR | |||
| r-release-windows-x86_64 | 0.5.5 | 29.00 | 281.00 | 310.00 | 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 | 37.00 | 386.00 | 423.00 | OK |
Version: 0.5.5
Check: tests
Result: ERROR
Running ‘testthat.R’ [9s/16s]
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 forceAndCall(1, FUN, newX[, i], ...) :
closing unused connection 6 (<-localhost:11987)
2: In forceAndCall(1, FUN, newX[, i], ...) :
closing unused connection 5 (<-localhost:11987)
Execution halted
Flavor: r-release-macos-arm64
Version: 0.5.5
Check: tests
Result: ERROR
Running ‘testthat.R’ [16s/38s]
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 if (is.character(fun)) fun <- get(fun, mode = "function", envir = envir) :
closing unused connection 6 (<-localhost:11000)
2: In if (is.character(fun)) fun <- get(fun, mode = "function", envir = envir) :
closing unused connection 5 (<-localhost:11000)
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