Last updated on 2026-03-05 13:49:40 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.2.8 | 8.57 | 252.93 | 261.50 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.2.8 | 0.30 | 3.01 | 3.31 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.2.8 | 16.00 | 177.08 | 193.08 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 1.2.8 | 14.00 | 189.40 | 203.40 | ERROR | |
| r-devel-macos-arm64 | 1.2.8 | 2.00 | 79.00 | 81.00 | OK | |
| r-devel-windows-x86_64 | 1.2.8 | 11.00 | 388.00 | 399.00 | OK | |
| r-patched-linux-x86_64 | 1.2.8 | 7.70 | 259.16 | 266.86 | OK | |
| r-release-linux-x86_64 | 1.2.8 | 8.15 | 258.34 | 266.49 | OK | |
| r-release-macos-arm64 | 1.2.8 | OK | ||||
| r-release-macos-x86_64 | 1.2.8 | 5.00 | 248.00 | 253.00 | OK | |
| r-release-windows-x86_64 | 1.2.8 | 10.00 | 392.00 | 402.00 | OK | |
| r-oldrel-macos-arm64 | 1.2.8 | OK | ||||
| r-oldrel-macos-x86_64 | 1.2.8 | 5.00 | 258.00 | 263.00 | OK | |
| r-oldrel-windows-x86_64 | 1.2.8 | 14.00 | 431.00 | 445.00 | OK |
Version: 1.2.8
Check: package dependencies
Result: ERROR
Packages required but not available: 'ShortRead', 'Biostrings'
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.2.8
Check: tests
Result: ERROR
Running ‘testthat.R’ [23s/28s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(genBaRcode)
>
> test_check("genBaRcode")
Saving _problems/test_raw_data_functions-44.R
Saving _problems/test_raw_data_functions-121.R
[ FAIL 2 | WARN 1 | SKIP 0 | PASS 21 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_raw_data_functions.R:44:3'): processingRawData - extractBarcodes ──
Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
Backtrace:
▆
1. └─base::loadNamespace(x) at test_raw_data_functions.R:44:3
2. └─base::library.dynam(lib, package, package.lib)
3. └─base::dyn.load(file, DLLpath = DLLpath, ...)
── Error ('test_raw_data_functions.R:121:3'): processingRawData - fixBorderlineBCs and extractWobble ──
Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
Backtrace:
▆
1. └─base::loadNamespace(x) at test_raw_data_functions.R:121:3
2. └─base::library.dynam(lib, package, package.lib)
3. └─base::dyn.load(file, DLLpath = DLLpath, ...)
[ FAIL 2 | WARN 1 | SKIP 0 | PASS 21 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.2.8
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘genBaRcode_GUI_Vignette.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘genBaRcode_GUI_Vignette.Rmd’
--- re-building ‘genBaRcode_Vignette.Rmd’ using rmarkdown
Quitting from genBaRcode_Vignette.Rmd:154-176 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `dyn.load()`:
! unable to load shared object '/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
---
Backtrace:
x
1. +-genBaRcode::processingRawData(...)
2. | \-genBaRcode:::processingRawData_single(...)
3. | \-genBaRcode::qualityFiltering(file_name, source_dir, min_score)
4. \-base::loadNamespace(x)
5. \-base::library.dynam(lib, package, package.lib)
6. \-base::dyn.load(file, DLLpath = DLLpath, ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'genBaRcode_Vignette.Rmd' failed with diagnostics:
unable to load shared object '/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-clang/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
--- failed re-building ‘genBaRcode_Vignette.Rmd’
SUMMARY: processing the following file failed:
‘genBaRcode_Vignette.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.2.8
Check: tests
Result: ERROR
Running ‘testthat.R’ [23s/51s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(genBaRcode)
>
> test_check("genBaRcode")
Saving _problems/test_raw_data_functions-44.R
Saving _problems/test_raw_data_functions-121.R
[ FAIL 2 | WARN 1 | SKIP 0 | PASS 21 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_raw_data_functions.R:44:3'): processingRawData - extractBarcodes ──
Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
Backtrace:
▆
1. └─base::loadNamespace(x) at test_raw_data_functions.R:44:3
2. └─base::library.dynam(lib, package, package.lib)
3. └─base::dyn.load(file, DLLpath = DLLpath, ...)
── Error ('test_raw_data_functions.R:121:3'): processingRawData - fixBorderlineBCs and extractWobble ──
Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
Backtrace:
▆
1. └─base::loadNamespace(x) at test_raw_data_functions.R:121:3
2. └─base::library.dynam(lib, package, package.lib)
3. └─base::dyn.load(file, DLLpath = DLLpath, ...)
[ FAIL 2 | WARN 1 | SKIP 0 | PASS 21 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.2.8
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘genBaRcode_GUI_Vignette.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘genBaRcode_GUI_Vignette.Rmd’
--- re-building ‘genBaRcode_Vignette.Rmd’ using rmarkdown
Quitting from genBaRcode_Vignette.Rmd:154-176 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `dyn.load()`:
! unable to load shared object '/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
---
Backtrace:
x
1. +-genBaRcode::processingRawData(...)
2. | \-genBaRcode:::processingRawData_single(...)
3. | \-genBaRcode::qualityFiltering(file_name, source_dir, min_score)
4. \-base::loadNamespace(x)
5. \-base::library.dynam(lib, package, package.lib)
6. \-base::dyn.load(file, DLLpath = DLLpath, ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'genBaRcode_Vignette.Rmd' failed with diagnostics:
unable to load shared object '/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so':
/data/gannet/ripley/R/test-dev/ShortRead/libs/ShortRead.so: undefined symbol: IS_S4_OBJECT
--- failed re-building ‘genBaRcode_Vignette.Rmd’
SUMMARY: processing the following file failed:
‘genBaRcode_Vignette.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc