R Under development (unstable) (2024-10-31 r87283 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
> 
> require(testthat)
Loading required package: testthat
> require(PvSTATEM)
Loading required package: PvSTATEM
> 
> test_check("PvSTATEM")
Creating the output directory: 'D:/temp/RtmpW0vBFC/output'
(WARNING)
Using less than five samples to fit the logistic model. For now, using the basic nplr method to fit the logistic model - should be modified in the futureInstance of the Model class fitted for analyte ' Spike_6P_IPP ': 
 - fitted with 2 parameters
 - using 2 samples
 - using log residuals (mfi):  TRUE 
 - using log dilution:  TRUE 
 - top asymptote: 100 
 - bottom asymptote: 50 
 - goodness of fit: 1 
 - weighted goodness of fit: 1 
[1] "Parsing fileD:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/external/Chul_IgG3_1.csv"
[1] "Parsing successful"
[1] "Parsing fileD:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/external/Chul_TotalIgG_2.csv"
[1] "Parsing successful"
[1] "Parsing fileD:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/external/New_Batch_14_20140513_082522.csv"
[1] "Parsing successful"
[1] "Parsing fileD:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/external/New_Batch_6_20160309_174224.csv"
[1] "Parsing successful"
[1] "Parsing fileD:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/external/pone.0187901.s001.csv"
[1] "Parsing successful"
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/CovidOISExPONTENT_CO.csv
using format xPONENT
(WARNING)
Number of layout fields is higher than the number of samples. Please check the layout file. Using only first 49 dilutions from the layout file. 

New plate object has been created with name: CovidOISExPONTENT_CO!

Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/CovidOISExPONTENT_CO.csv
using format xPONENT
(WARNING)
Number of layout fields is higher than the number of samples. Please check the layout file. Using only first 49 dilutions from the layout file. 

New plate object has been created with name: CovidOISExPONTENT_CO!

Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/CovidOISExPONTENT_CO.csv
using format xPONENT
(WARNING)
Number of layout fields is higher than the number of samples. Please check the layout file. Using only first 49 dilutions from the layout file. 

New plate object has been created with name: CovidOISExPONTENT_CO!

Fitting the models and predicting RAU for each analyte
Adding the raw MFI values to the output dataframe
Saving the computed RAU values to a CSV file located in: 'D:\temp\RtmpW0vBFC/output.csv'
Fitting the models and predicting RAU for each analyte
Adding the raw MFI values to the output dataframe
Saving the computed RAU values to a CSV file located in: 'D:\temp\RtmpW0vBFC/output.csv'
Fitting the models and predicting RAU for each analyte
Computing nMFI values for each analyte
Adding the raw MFI values to the output dataframe
Saving the computed nMFI values to a CSV file located in: 'D:\temp\RtmpW0vBFC/output.csv'
Computing nMFI values for each analyte
Adding the raw MFI values to the output dataframe
Saving the computed nMFI values to a CSV file located in: 'D:\temp\RtmpW0vBFC/output.csv'
Computing nMFI values for each analyte
Computing nMFI values for each analyte
Computing nMFI values for each analyte
Computing nMFI values for each analyte
Saving the computed nMFI values to a CSV file located in: 'D:\temp\RtmpW0vBFC/output.csv'
Computing nMFI values for each analyte
Adding the raw MFI values to the output dataframe
Saving the computed nMFI values to a CSV file located in: 'D:\temp\RtmpW0vBFC/output.csv'
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 215 ]

[ FAIL 0 | WARN 1 | SKIP 0 | PASS 215 ]
> 
> proc.time()
   user  system elapsed 
  41.23    5.59   52.48