R Under development (unstable) (2024-09-21 r87186 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")
Plate with 96 samples and 30 analytes
Summary of the plate with name 'CovidOISExPONTENT':
Total number of samples: 96
Number of blank samples: 1
Number of standard curve samples: 11
Number of positive control samples: 0
Number of negative control samples: 0
Number of test samples: 84
Number of analytes: 30
Fitting the models and computing the dilutions for each analyte
Saving the computed dilutions to a CSV file located in: 'D:\temp\RtmpMHm8xd/output.csv'
(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"
Plate with 12 samples and 1 analytes
Summary of the plate with name 'plate':
Total number of samples: 12
Number of blank samples: 1
Number of standard curve samples: 10
Number of positive control samples: 0
Number of negative control samples: 0
Number of test samples: 1
Number of analytes: 1
Summary of the plate with name 'plate':
Total number of samples: 12
Number of blank samples: 1
Number of standard curve samples: 10
Sample names: 'S', 'S', 'S', 'S', 'S', 'S', 'S', 'S', 'S', 'S'
Number of positive control samples: 0
Number of negative control samples: 0
Number of test samples: 1
Number of analytes: 1
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!

[ FAIL 0 | WARN 8 | SKIP 0 | PASS 138 ]

[ FAIL 0 | WARN 8 | SKIP 0 | PASS 138 ]
> 
> proc.time()
   user  system elapsed 
   9.15    1.03   10.14