R Under development (unstable) (2024-07-11 r86890 ucrt) -- "Unsuffered Consequences"
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> # 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(pooledpeaks)
> 
> test_check("pooledpeaks")
[1] "[1] 1"
[1] 1
[1] "                          Expected Genetic Distance\n                           versus Realized Genetic\n     0.30\n     0.25\n     0.20\n     0.15                               Distance\nED\n\n     0.10\n     0.05\n     0.00\n\n\n\n\n            0.00   0.05      0.10    0.15   0.20      0.25   0.30\n\n                                     GD\n"
[1] 10
[1] 20
[1] 10
[1] 20
[1] 10
[1] 20
[1] 10
[1] 20
[1] 8.724602e-05
[1] 0.372616
[1] 0.01202364
[1] 0.1088547
[1] 8.724602e-05
[1] 0.372616
[1] 0.01202364
[1] 0.1088547
[1] "Jost D between duplicate samples"
[1] "Multiplex_set_I_Shaem.1" "Multiplex_set_I_Shaem.2"
[3] "Multiplex_set_I_Shaem.3" "Multiplex_set_I_Shaem.4"
[5] "Multiplex_set_I_Smans.1"
[1] "8.72460211127635e-05" "0.372616004803687"    "0.0120236418304402"  
[4] "0.108854747323611"   
[1] "Samples where duplicates have a Jost D exceeding 0.05"
[1] "Multiplex_set_I_Shaem.3" "Multiplex_set_I_Smans.1"
Reading FSA files
Applying Fourier tranformation for smoothing...
Checking and correcting for saturated peaks...
Columns have been renamed with associated fluoresecent dye.
Reading FSA files
Applying Fourier tranformation for smoothing...
Checking and correcting for saturated peaks...
Reading FSA files
Applying Fourier tranformation for smoothing...
Reading FSA files
Checking and correcting for saturated peaks...
Error in file(filename, open = "rb") : cannot open the connection
Reading FSA files
Applying Fourier tranformation for smoothing...
Checking and correcting for saturated peaks...
Columns have been renamed with associated fluoresecent dye.

Reducing threshold 2x to find ladder 

Reducing threshold 2x to find ladder 

Sizing process complete. Information has been stored in the environment for posterior functions.
For example to be used by the overview2() or score.markers() functions. You have set 'plotting = FALSE', meaning this command will
    return
                   only a list peak scores

Scoring  panel peaks
Please be patient!
Reading FSA files
Applying Fourier tranformation for smoothing...
Checking and correcting for saturated peaks...
Columns have been renamed with associated fluoresecent dye.

Reducing threshold 2x to find ladder 

Reducing threshold 2x to find ladder 

Sizing process complete. Information has been stored in the environment for posterior functions.
For example to be used by the overview2() or score.markers() functions. You have set 'plotting = FALSE', meaning this command will
    return
                   only a list peak scores

Scoring  panel peaks
Please be patient!

Reducing threshold 2x to find ladder 

Reducing threshold 2x to find ladder 
You are writing plots for all samples to the directory 'plots_scoring'.
  For faster calculation but no plots, set 'plotting = FALSE'

Scoring  panel peaks
Please be patient!

Reducing threshold 2x to find ladder 

Reducing threshold 2x to find ladder 
Writing plots to directory 'plots_scoring'

Saved 1/12 plots
Saved 2/12 plots
Saved 3/12 plots
Saved 4/12 plots
Saved 5/12 plots
Saved 6/12 plots
Saved 7/12 plots
Saved 8/12 plots
Saved 9/12 plots
Saved 10/12 plots
Saved 11/12 plots
Saved 12/12 plots
Cleaning up...
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 206 ]
> 
> proc.time()
   user  system elapsed 
  37.93    1.03   38.98