Output 'SomaScan' Data

adats list is named properly and has proper dimensions

Code
  lapply(adats, dim)
Output
  $example_data10.adat
  [1]   10 5318

  $single_sample.adat
  [1]    1 5318

throws warning when failure to load adat

Code
  bad <- loadAdatsAsList(c(files, "fail.adat"))
Message
  x Failed to load: "fail.adat"

Code
  bad2 <- loadAdatsAsList(c("a.adat", "b.adat"))
Message
  x Failed to load: "a.adat"
  x Failed to load: "b.adat"

collapsed ADATs attributes (HEADER) are correctly merged

Code
  atts$Header.Meta$HEADER
Output
  $AdatId
  [1] "GID-1234-56-789-abcdef"
  attr(,"raw_key")
  [1] "!AdatId"

  $Version
  [1] "1.2"
  attr(,"raw_key")
  [1] "!Version"

  $AssayType
  [1] "PharmaServices"
  attr(,"raw_key")
  [1] "!AssayType"

  $AssayVersion
  [1] "V4"
  attr(,"raw_key")
  [1] "!AssayVersion"

  $AssayRobot
  [1] "Fluent 1 L-307, Fluent 1 L-307"
  attr(,"raw_key")
  [1] "!AssayRobot"

  $Legal
  [1] "Experiment details and data have been processed to protect Personally Identifiable Information (PII) and comply with existing privacy laws."
  attr(,"raw_key")
  [1] "!Legal"

  $CreatedBy
  [1] "PharmaServices"
  attr(,"raw_key")
  [1] "!CreatedBy"

  $CreatedDate
  [1] "2020-07-24, 2020-07-25"
  attr(,"raw_key")
  [1] "!CreatedDate"

  $EnteredBy
  [1] "Technician1"
  attr(,"raw_key")
  [1] "!EnteredBy"

  $ExpDate
  [1] "2020-06-18, 2020-07-20"
  attr(,"raw_key")
  [1] "!ExpDate"

  $GeneratedBy
  [1] "Px (Build:  : ), Canopy_0.1.1"
  attr(,"raw_key")
  [1] "!GeneratedBy"

  $RunNotes
  [1] "2 columns ('Age' and 'Sex') have been added to this ADAT. Age has been randomly increased or decreased by 1-2 years to protect patient information"
  attr(,"raw_key")
  [1] "!RunNotes"

  $ProcessSteps
  [1] "Raw RFU, Hyb Normalization, medNormInt (SampleId), plateScale, Calibration, anmlQC, qcCheck, anmlSMP"
  attr(,"raw_key")
  [1] "!ProcessSteps"

  $ProteinEffectiveDate
  [1] "2019-08-06"
  attr(,"raw_key")
  [1] "!ProteinEffectiveDate"

  $StudyMatrix
  [1] "EDTA Plasma"
  attr(,"raw_key")
  [1] "!StudyMatrix"

  $PlateType
  character(0)
  attr(,"raw_key")
  [1] "!PlateType"

  $LabLocation
  [1] "SLUS"
  attr(,"raw_key")
  [1] "!LabLocation"

  $StudyOrganism
  character(0)
  attr(,"raw_key")
  [1] "!StudyOrganism"

  $Title
  [1] "Example Adat Set001, Example Adat Set002, Example Adat Set001, Example Adat Set002"
  attr(,"raw_key")
  [1] "!Title"

  $AssaySite
  [1] "SW"
  attr(,"raw_key")
  [1] "!AssaySite"

  $CalibratorId
  [1] "170261"
  attr(,"raw_key")
  [1] "!CalibratorId"

  $ReportConfig
  [1] "{\"analysisSteps\":[{\"stepType\":\"hybNorm\",\"referenceSource\":\"intraplate\",\"includeSampleTypes\":[\"QC\",\"Calibrator\",\"Buffer\"]},{\"stepName\":\"medNormInt\",\"stepType\":\"medNorm\",\"includeSampleTypes\":[\"Calibrator\",\"Buffer\"],\"referenceSource\":\"intraplate\",\"referenceFields\":[\"SampleId\"]},{\"stepType\":\"plateScale\",\"referenceSource\":\"Reference_v4_Plasma_Calibrator_170261\"},{\"stepType\":\"calibrate\",\"referenceSource\":\"Reference_v4_Plasma_Calibrator_170261\"},{\"stepName\":\"anmlQC\",\"stepType\":\"ANML\",\"effectSizeCutoff\":2.0,\"minFractionUsed\":0.3,\"includeSampleTypes\":[\"QC\"],\"referenceSource\":\"Reference_v4_Plasma_ANML\"},{\"stepType\":\"qcCheck\",\"QCReferenceSource\":\"Reference_v4_Plasma_QC_ANML_170255\",\"tailsCriteriaLower\":0.8,\"tailsCriteriaUpper\":1.2,\"tailThreshold\":15.0,\"QCAdditionalReferenceSources\":[\"Reference_v4_Plasma_QC_ANML_170259\",\"Reference_v4_Plasma_QC_ANML_170260\"],\"prenormalized\":true},{\"stepName\":\"anmlSMP\",\"stepType\":\"ANML\",\"effectSizeCutoff\":2.0,\"minFractionUsed\":0.3,\"includeSampleTypes\":[\"Sample\"],\"referenceSource\":\"Reference_v4_Plasma_ANML\"}],\"qualityReports\":[\"SQS Report\"],\"filter\":{\"proteinEffectiveDate\":\"2019-08-06\"}}"
  attr(,"raw_key")
  [1] "!ReportConfig"

  $HybNormReference
  [1] "intraplate"
  attr(,"raw_key")
  [1] "HybNormReference"

  $MedNormReference
  [1] "intraplate"
  attr(,"raw_key")
  [1] "MedNormReference"

  $NormalizationAlgorithm
  [1] "ANML"
  attr(,"raw_key")
  [1] "NormalizationAlgorithm"

  $PlateScale_ReferenceSource
  [1] "Reference_v4_Plasma_Calibrator_170261"
  attr(,"raw_key")
  [1] "PlateScale_ReferenceSource"

  $PlateScale_Scalar_Example_Adat_Set001
  [1] "1.08091554"
  attr(,"raw_key")
  [1] "PlateScale_Scalar_Example_Adat_Set001"

  $PlateScale_PassFlag_Example_Adat_Set001
  [1] "PASS"
  attr(,"raw_key")
  [1] "PlateScale_PassFlag_Example_Adat_Set001"

  $CalibrationReference
  [1] "Reference_v4_Plasma_Calibrator_170261"
  attr(,"raw_key")
  [1] "CalibrationReference"

  $CalPlateTailPercent_Example_Adat_Set001
  [1] "0.1"
  attr(,"raw_key")
  [1] "CalPlateTailPercent_Example_Adat_Set001"

  $PlateTailPercent_Example_Adat_Set001
  [1] "1.2"
  attr(,"raw_key")
  [1] "PlateTailPercent_Example_Adat_Set001"

  $PlateTailTest_Example_Adat_Set001
  [1] "PASS"
  attr(,"raw_key")
  [1] "PlateTailTest_Example_Adat_Set001"

  $PlateScale_Scalar_Example_Adat_Set002
  [1] "1.09915270"
  attr(,"raw_key")
  [1] "PlateScale_Scalar_Example_Adat_Set002"

  $PlateScale_PassFlag_Example_Adat_Set002
  [1] "PASS"
  attr(,"raw_key")
  [1] "PlateScale_PassFlag_Example_Adat_Set002"

  $CalPlateTailPercent_Example_Adat_Set002
  [1] "2.6"
  attr(,"raw_key")
  [1] "CalPlateTailPercent_Example_Adat_Set002"

  $PlateTailPercent_Example_Adat_Set002
  [1] "4.2"
  attr(,"raw_key")
  [1] "PlateTailPercent_Example_Adat_Set002"

  $PlateTailTest_Example_Adat_Set002
  [1] "PASS"
  attr(,"raw_key")
  [1] "PlateTailTest_Example_Adat_Set002"

  $CollapsedAdats
  [1] "example_data10.adat, single_sample.adat"