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Last updated on 2026-04-15 05:53:39 CEST.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| FastRet | 14 | ||
| metabodecon | 1 | 3 | 10 |
| toscmask | 14 | ||
| toscutil | 14 |
Current CRAN status: OK: 14
Current CRAN status: ERROR: 1, NOTE: 3, OK: 10
Version: 1.6.2
Check: tests
Result: ERROR
Running 'testthat.R' [12s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(metabodecon)
>
> test_check("metabodecon")
Starting 2 test processes.
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.02 Starting deconvolution of 1 spectrum using 1 worker
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.02 Starting deconvolution of sap_01
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.02 Removing water signal
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.02 Removing negative signals
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.02 Smoothing signals
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.02 Starting peak selection
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.03 Detected 24 peaks
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.03 Detected 24 peaks
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.03 Removing peaks with low scores
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.03 Removed 20 peaks
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.03 Initializing Lorentz curves
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.03 MSE at peak tiplet positions: 0.0000023352180995647374
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.03 Refining Lorentz Curves
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.04 MSE at peak tiplet positions: 0.0000000822818617368644
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.04 MSE at peak tiplet positions: 0.0000000163050712082374
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.04 MSE at peak tiplet positions: 0.0000000069366441759494
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.05 Formatting return object as decon1
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.05 Finished deconvolution of sap_01
> test-generate_lorentz_curves.R: 2026-04-13 17:44:21.05 Finished deconvolution of 1 spectrum in 0.033 secs
> test-as_decon.R: 2026-04-13 17:44:23.35 Starting deconvolution of sap_01
> test-as_decon.R: 2026-04-13 17:44:23.35 Removing water signal
> test-as_decon.R: 2026-04-13 17:44:23.35 Removing negative signals
> test-as_decon.R: 2026-04-13 17:44:23.35 Smoothing signals
> test-as_decon.R: 2026-04-13 17:44:23.35 Starting peak selection
> test-as_decon.R: 2026-04-13 17:44:23.36 Detected 18 peaks
> test-as_decon.R: 2026-04-13 17:44:23.36 Detected 18 peaks
> test-as_decon.R: 2026-04-13 17:44:23.36 Removing peaks with low scores
> test-as_decon.R: 2026-04-13 17:44:23.36 Removed 14 peaks
> test-as_decon.R: 2026-04-13 17:44:23.36 Initializing Lorentz curves
> test-as_decon.R: 2026-04-13 17:44:23.36 MSE at peak tiplet positions: 0.0000024963648931653179
> test-as_decon.R: 2026-04-13 17:44:23.36 Refining Lorentz Curves
> test-as_decon.R: 2026-04-13 17:44:23.36 MSE at peak tiplet positions: 0.0000001165616696457351
> test-as_decon.R: 2026-04-13 17:44:23.37 MSE at peak tiplet positions: 0.0000000180892220732885
> test-as_decon.R: 2026-04-13 17:44:23.37 MSE at peak tiplet positions: 0.0000000055685735596689
> test-as_decon.R: 2026-04-13 17:44:23.37 Formatting return object as idecon
> test-as_decon.R: 2026-04-13 17:44:23.37 Finished deconvolution of sap_01
> test-as_decon.R: 2026-04-13 17:44:23.37 Starting deconvolution of sap_01 using Rust backend
> test-deconvolute.R: 2026-04-13 17:44:24.22 Starting deconvolution of 1 spectrum using 1 worker
> test-deconvolute.R: 2026-04-13 17:44:24.23 Starting deconvolution of sap_01
> test-deconvolute.R: 2026-04-13 17:44:24.23 Removing water signal
> test-deconvolute.R: 2026-04-13 17:44:24.23 Removing negative signals
> test-deconvolute.R: 2026-04-13 17:44:24.23 Smoothing signals
> test-deconvolute.R: 2026-04-13 17:44:24.23 Starting peak selection
> test-deconvolute.R: 2026-04-13 17:44:24.23 Detected 24 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.23 Detected 24 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.23
> test-deconvolute.R: Removing peaks with low scores
> test-deconvolute.R: 2026-04-13 17:44:24.24 Removed 20 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.24 Initializing Lorentz curves
> test-deconvolute.R: 2026-04-13 17:44:24.24 MSE at peak tiplet positions: 0.0000023352180995647374
> test-deconvolute.R: 2026-04-13 17:44:24.24 Refining Lorentz Curves
> test-deconvolute.R: 2026-04-13 17:44:24.24 MSE at peak tiplet positions: 0.0000000822818617368644
> test-deconvolute.R: 2026-04-13 17:44:24.25 MSE at peak tiplet positions: 0.0000000163050712082374
> test-deconvolute.R: 2026-04-13 17:44:24.25 MSE at peak tiplet positions: 0.0000000069366441759494
> test-deconvolute.R: 2026-04-13 17:44:24.26 Formatting return object as decon2
> test-deconvolute.R: 2026-04-13 17:44:24.26 Finished deconvolution of sap_01
> test-deconvolute.R: 2026-04-13 17:44:24.26 Finished deconvolution of 1 spectrum in 0.038 secs
> test-deconvolute.R: 2026-04-13 17:44:24.29 Starting deconvolution of 2 spectra using 1 worker
> test-deconvolute.R: 2026-04-13 17:44:24.29 Starting deconvolution of sim_01
> test-deconvolute.R: 2026-04-13 17:44:24.30 Removing water signal
> test-deconvolute.R: 2026-04-13 17:44:24.30 Removing negative signals
> test-deconvolute.R: 2026-04-13 17:44:24.30 Smoothing signals
> test-deconvolute.R: 2026-04-13 17:44:24.31 Starting peak selection
> test-deconvolute.R: 2026-04-13 17:44:24.32 Detected 314 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.32 Detected 314 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.32 Removing peaks with low scores
> test-deconvolute.R: 2026-04-13 17:44:24.32 Removed 287 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.32 Initializing Lorentz curves
> test-deconvolute.R: 2026-04-13 17:44:24.32 MSE at peak tiplet positions: 4.0838805770844048836921
> test-deconvolute.R: 2026-04-13 17:44:24.32 Refining Lorentz Curves
> test-deconvolute.R: 2026-04-13 17:44:24.33 MSE at peak tiplet positions: 0.1609359876216345797140
> test-deconvolute.R: 2026-04-13 17:44:24.33 MSE at peak tiplet positions: 0.0228015051613790278862
> test-deconvolute.R: 2026-04-13 17:44:24.34 MSE at peak tiplet positions: 0.0071638016610617982066
> test-deconvolute.R: 2026-04-13 17:44:24.34 Formatting return object as decon2
> test-deconvolute.R: 2026-04-13 17:44:24.36 Finished deconvolution of sim_01
> test-deconvolute.R: 2026-04-13 17:44:24.36 Starting deconvolution of sim_02
> test-deconvolute.R: 2026-04-13 17:44:24.36 Removing water signal
> test-deconvolute.R: 2026-04-13 17:44:24.36 Removing negative signals
> test-deconvolute.R: 2026-04-13 17:44:24.36 Smoothing signals
> test-deconvolute.R: 2026-04-13 17:44:24.38 Starting peak selection
> test-deconvolute.R: 2026-04-13 17:44:24.38 Detected 316 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.38 Detected 316 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.39 Removing peaks with low scores
> test-deconvolute.R: 2026-04-13 17:44:24.39 Removed 286 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.39 Initializing Lorentz curves
> test-deconvolute.R: 2026-04-13 17:44:24.39 MSE at peak tiplet positions: 3.8338943428876719465848
> test-deconvolute.R: 2026-04-13 17:44:24.39 Refining Lorentz Curves
> test-deconvolute.R: 2026-04-13 17:44:24.40 MSE at peak tiplet positions: 0.1289481941626757499630
> test-deconvolute.R: 2026-04-13 17:44:24.40 MSE at peak tiplet positions: 0.0135651899090413925741
> test-deconvolute.R: 2026-04-13 17:44:24.41 MSE at peak tiplet positions: 0.0025556755331531126781
> test-deconvolute.R: 2026-04-13 17:44:24.41 Formatting return object as decon2
> test-deconvolute.R: 2026-04-13 17:44:24.43 Finished deconvolution of sim_02
> test-deconvolute.R: 2026-04-13 17:44:24.43 Finished deconvolution of 2 spectra in 0.135 secs
> test-deconvolute.R: 2026-04-13 17:44:24.51 Starting deconvolution of 1 spectrum using 1 worker
> test-deconvolute.R: 2026-04-13 17:44:24.51 Starting deconvolution of sim_00
> test-deconvolute.R: 2026-04-13 17:44:24.51 Removing water signal
> test-deconvolute.R: 2026-04-13 17:44:24.51 Removing negative signals
> test-deconvolute.R: 2026-04-13 17:44:24.51 Smoothing signals
> test-deconvolute.R: 2026-04-13 17:44:24.52 Starting peak selection
> test-deconvolute.R: 2026-04-13 17:44:24.52 Detected 63 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.52 Detected 63 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.52 Removing peaks with low scores
> test-deconvolute.R: 2026-04-13 17:44:24.54 Starting deconvolution of 1 spectrum using 1 worker
> test-deconvolute.R: 2026-04-13 17:44:24.54 Starting deconvolution of sim_00
> test-deconvolute.R: 2026-04-13 17:44:24.54 Removing water signal
> test-deconvolute.R: 2026-04-13 17:44:24.54 Removing negative signals
> test-deconvolute.R: 2026-04-13 17:44:24.54 Smoothing signals
> test-deconvolute.R: 2026-04-13 17:44:24.54 Starting peak selection
> test-deconvolute.R: 2026-04-13 17:44:24.54 Detected 63 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.54 Detected 63 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.55 Removing peaks with low scores
> test-deconvolute.R: 2026-04-13 17:44:24.55 Not enough signals found in signal free region. This is a clear indication that the deconvolution parameters are not set correctly. Continuing anyways without dynamic peak filtering, because `force` is TRUE. Note that this might increase runtime drastically.
> test-deconvolute.R: 2026-04-13 17:44:24.55 Removed 0 peaks
> test-deconvolute.R: 2026-04-13 17:44:24.55 Initializing Lorentz curves
> test-deconvolute.R: 2026-04-13 17:44:24.55 MSE at peak tiplet positions: 1.2776621160691832290723
> test-deconvolute.R: 2026-04-13 17:44:24.55 Refining Lorentz Curves
> test-deconvolute.R: 2026-04-13 17:44:24.56 MSE at peak tiplet positions: 0.0382680161940291765910
> test-deconvolute.R: 2026-04-13 17:44:24.57 MSE at peak tiplet positions: 0.0106273721357572573792
> test-deconvolute.R: 2026-04-13 17:44:24.57 MSE at peak tiplet positions: 0.0050118558740663400955
> test-deconvolute.R: 2026-04-13 17:44:24.58 Formatting return object as decon2
> test-deconvolute.R: 2026-04-13 17:44:24.58 Finished deconvolution of sim_00
> test-deconvolute.R: 2026-04-13 17:44:24.58 Finished deconvolution of 1 spectrum in 0.047 secs
> test-find_peaks_fast2.R: 2026-04-13 17:44:25.56 Starting peak selection
> test-find_peaks_fast2.R: 2026-04-13 17:44:25.56 Detected 3 peaks
> test-get_si_mat.R: 2026-04-13 17:44:25.97 Starting deconvolution of 2 spectra using 1 worker
> test-get_si_mat.R: 2026-04-13 17:44:25.97 Starting deconvolution of sim_01
> test-get_si_mat.R: 2026-04-13 17:44:25.97 Removing water signal
> test-get_si_mat.R: 2026-04-13 17:44:25.97
> test-get_si_mat.R: Removing negative signals
> test-get_si_mat.R: 2026-04-13 17:44:25.98 Smoothing signals
> test-get_si_mat.R: 2026-04-13 17:44:25.99 Starting peak selection
> test-get_si_mat.R: 2026-04-13 17:44:25.99 Detected 314 peaks
> test-get_si_mat.R: 2026-04-13 17:44:25.99 Detected 314 peaks
> test-get_si_mat.R: 2026-04-13 17:44:25.99 Removing peaks with low scores
> test-get_si_mat.R: 2026-04-13 17:44:25.99 Removed 287 peaks
> test-get_si_mat.R: 2026-04-13 17:44:25.99 Initializing Lorentz curves
> test-get_si_mat.R: 2026-04-13 17:44:25.99 MSE at peak tiplet positions: 4.0838805770844048836921
> test-get_si_mat.R: 2026-04-13 17:44:26.00 Refining Lorentz Curves
> test-get_si_mat.R: 2026-04-13 17:44:26.00 MSE at peak tiplet positions: 0.1609359876216345797140
> test-get_si_mat.R:
Error:
! testthat subprocess exited in file 'test-get_si_mat.R'.
Caused by error:
! R session crashed with exit code -1073741819
Backtrace:
▆
1. └─testthat::test_check("metabodecon")
2. └─testthat::test_dir(...)
3. └─testthat:::test_files(...)
4. └─testthat:::test_files_parallel(...)
5. ├─withr::with_dir(...)
6. │ └─base::force(code)
7. ├─testthat::with_reporter(...)
8. │ └─base::tryCatch(...)
9. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
10. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
11. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
12. └─testthat:::parallel_event_loop_chunky(queue, reporters, ".")
13. └─queue$poll(Inf)
14. └─base::lapply(...)
15. └─testthat (local) FUN(X[[i]], ...)
16. └─private$handle_error(msg, i)
17. └─cli::cli_abort(...)
18. └─rlang::abort(...)
Execution halted
Flavor: r-devel-windows-x86_64
Version: 1.6.2
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘mdrb’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Current CRAN status: OK: 14
Current CRAN status: OK: 14
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.