R Under development (unstable) (2025-01-25 r87633 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/2025_01_26_17_30_16_25853/RtmpuylFwn/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

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

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

New plate object has been created with name: CovidOISExPONTENT_CO!

Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_reallife_reduced/IGG_CO_1_xponent.csv
using format xPONENT

New plate object has been created with name: IGG_CO_1_xponent!

Processing plate 'IGG_CO_1_xponent'
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/2025_01_26_17_30_16_25853/RtmpuylFwn/IGG_CO_1_xponent_RAU.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/2025_01_26_17_30_16_25853/RtmpuylFwn/IGG_CO_1_xponent_nMFI.csv'
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_reallife_reduced/IGG_CO_2_xponent.csv
using format xPONENT

New plate object has been created with name: IGG_CO_2_xponent!

Processing plate 'IGG_CO_2_xponent'
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/2025_01_26_17_30_16_25853/RtmpuylFwn/IGG_CO_2_xponent_RAU.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/2025_01_26_17_30_16_25853/RtmpuylFwn/IGG_CO_2_xponent_nMFI.csv'
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_reallife_reduced/IGG_CO_3_xponent.csv
using format xPONENT

New plate object has been created with name: IGG_CO_3_xponent!

Processing plate 'IGG_CO_3_xponent'
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/2025_01_26_17_30_16_25853/RtmpuylFwn/IGG_CO_3_xponent_RAU.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/2025_01_26_17_30_16_25853/RtmpuylFwn/IGG_CO_3_xponent_nMFI.csv'
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_lite/CovidOISExPONTENT.csv
using format xPONENT

New plate object has been created with name: CovidOISExPONTENT!

Processing plate 'CovidOISExPONTENT'
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/2025_01_26_17_30_16_25853/RtmpuylFwn/CovidOISExPONTENT_RAU.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/2025_01_26_17_30_16_25853/RtmpuylFwn/CovidOISExPONTENT_nMFI.csv'
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_lite/CovidOISExPONTENT2.csv
using format xPONENT

New plate object has been created with name: CovidOISExPONTENT2!

Processing plate 'CovidOISExPONTENT2'
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/2025_01_26_17_30_16_25853/RtmpuylFwn/CovidOISExPONTENT2_RAU.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/2025_01_26_17_30_16_25853/RtmpuylFwn/CovidOISExPONTENT2_nMFI.csv'
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_reallife_reduced/IGG_CO_1_xponent.csv
using format xPONENT

New plate object has been created with name: IGG_CO_1_xponent!

Processing plate 'IGG_CO_1_xponent'
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_reallife_reduced/IGG_CO_2_xponent.csv
using format xPONENT

New plate object has been created with name: IGG_CO_2_xponent!

Processing plate 'IGG_CO_2_xponent'
Reading Luminex data from: D:/RCompile/CRANincoming/R-devel/lib/PvSTATEM/extdata/multiplate_reallife_reduced/IGG_CO_3_xponent.csv
using format xPONENT

New plate object has been created with name: IGG_CO_3_xponent!

Processing plate 'IGG_CO_3_xponent'
Fitting the models and predicting RAU for each analyte
Adding the raw MFI values to the output dataframe
Fitting the models and predicting RAU for each analyte
Adding the raw MFI values to the output dataframe
Fitting the models and predicting RAU for each analyte
Adding the raw MFI values to the output dataframe
Merged output saved to: D:/temp/2025_01_26_17_30_16_25853/RtmpuylFwn/merged_RAU_20250126_173330.csv
Computing nMFI values for each analyte
Adding the raw MFI values to the output dataframe
Computing nMFI values for each analyte
Adding the raw MFI values to the output dataframe
Computing nMFI values for each analyte
Adding the raw MFI values to the output dataframe
Merged output saved to: D:/temp/2025_01_26_17_30_16_25853/RtmpuylFwn/merged_nMFI_20250126_173330.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/2025_01_26_17_30_16_25853/RtmpuylFwn/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/2025_01_26_17_30_16_25853/RtmpuylFwn/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/2025_01_26_17_30_16_25853/RtmpuylFwn/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/2025_01_26_17_30_16_25853/RtmpuylFwn/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/2025_01_26_17_30_16_25853/RtmpuylFwn/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/2025_01_26_17_30_16_25853/RtmpuylFwn/output.csv'
[ FAIL 0 | WARN 13 | SKIP 0 | PASS 323 ]

[ FAIL 0 | WARN 13 | SKIP 0 | PASS 323 ]
> 
> proc.time()
   user  system elapsed 
  51.53    4.03   64.50