427 lines
14 KiB
Go
427 lines
14 KiB
Go
package createGeneticAnalysis_test
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import "seekia/internal/genetics/createGeneticAnalysis"
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import "seekia/internal/genetics/readGeneticAnalysis"
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import "seekia/resources/geneticReferences/locusMetadata"
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import "seekia/resources/geneticReferences/monogenicDiseases"
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import "seekia/resources/geneticReferences/polygenicDiseases"
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import "seekia/resources/geneticReferences/traits"
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import "seekia/internal/genetics/createRawGenomes"
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import "seekia/internal/genetics/prepareRawGenomes"
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import "seekia/internal/helpers"
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import "testing"
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import "errors"
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func TestCreatePersonGeneticAnalysis_SingleGenome(t *testing.T){
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err := locusMetadata.InitializeLocusMetadataVariables()
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if (err != nil) {
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t.Fatalf("InitializeLocusMetadataVariables failed: " + err.Error())
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}
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monogenicDiseases.InitializeMonogenicDiseaseVariables()
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polygenicDiseases.InitializePolygenicDiseaseVariables()
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traits.InitializeTraitVariables()
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genomeIdentifier, err := helpers.GetNewRandomHexString(16)
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if (err != nil) {
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t.Fatalf("Failed to get random hex string: " + err.Error())
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}
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fakeRawGenome, _, _, _, err := createRawGenomes.CreateFakeRawGenome_AncestryDNA()
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if (err != nil) {
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t.Fatalf("Failed to create fake raw AncestryDNA genome: " + err.Error())
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}
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genomeIsValid, rawGenomeWithMetadata, err := prepareRawGenomes.CreateRawGenomeWithMetadataObject(genomeIdentifier, fakeRawGenome)
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if (err != nil){
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t.Fatalf("CreateRawGenomeWithMetadataObject failed: " + err.Error())
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}
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if (genomeIsValid == false){
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t.Fatalf("CreateRawGenomeWithMetadataObject failed: Genome is not valid.")
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}
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genomesList := []prepareRawGenomes.RawGenomeWithMetadata{rawGenomeWithMetadata}
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updateProgressFunction := func(_ int)error{
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return nil
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}
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checkIfProcessIsStoppedFunction := func()bool{
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return false
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}
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processCompleted, personGeneticAnalysis, err := createGeneticAnalysis.CreatePersonGeneticAnalysis(genomesList, updateProgressFunction, checkIfProcessIsStoppedFunction)
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if (err != nil){
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t.Fatalf("Failed to create person genetic analysis: " + err.Error())
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}
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if (processCompleted == false){
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t.Fatalf("Failed to create person genetic analysis: Process did not complete.")
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}
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personGeneticAnalysisMapList, err := readGeneticAnalysis.ReadGeneticAnalysisString(personGeneticAnalysis)
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if (err != nil){
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t.Fatalf("Failed to read person genetic analysis string: " + err.Error())
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}
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err = readGeneticAnalysis.ReadPersonGeneticAnalysisForTests(personGeneticAnalysisMapList)
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if (err != nil){
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t.Fatalf("Failed to read person genetic analysis: " + err.Error())
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}
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}
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func TestCreatePersonGeneticAnalysis_MultipleGenomes(t *testing.T){
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err := locusMetadata.InitializeLocusMetadataVariables()
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if (err != nil) {
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t.Fatalf("InitializeLocusMetadataVariables failed: " + err.Error())
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}
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monogenicDiseases.InitializeMonogenicDiseaseVariables()
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polygenicDiseases.InitializePolygenicDiseaseVariables()
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traits.InitializeTraitVariables()
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numberOfGenomesToAdd := helpers.GetRandomIntWithinRange(2, 5)
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genomesList := make([]prepareRawGenomes.RawGenomeWithMetadata, 0, numberOfGenomesToAdd)
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for i:=0; i < numberOfGenomesToAdd; i++{
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genomeIdentifier, err := helpers.GetNewRandomHexString(16)
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if (err != nil) {
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t.Fatalf("Failed to get random hex string: " + err.Error())
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}
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getFakeRawGenome := func()(string, error){
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is23andMe := helpers.GetRandomBool()
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if (is23andMe == true){
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fakeRawGenome, _, _, _, err := createRawGenomes.CreateFakeRawGenome_23andMe()
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if (err != nil) {
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return "", errors.New("Failed to create fake raw 23andMe genome: " + err.Error())
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}
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return fakeRawGenome, nil
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}
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fakeRawGenome, _, _, _, err := createRawGenomes.CreateFakeRawGenome_AncestryDNA()
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if (err != nil) {
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return "", errors.New("Failed to create fake raw AncestryDNA genome: " + err.Error())
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}
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return fakeRawGenome, nil
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}
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fakeRawGenome, err := getFakeRawGenome()
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if (err != nil){
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t.Fatalf("Failed to get fake raw genome: " + err.Error())
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}
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genomeIsValid, rawGenomeWithMetadata, err := prepareRawGenomes.CreateRawGenomeWithMetadataObject(genomeIdentifier, fakeRawGenome)
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if (err != nil){
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t.Fatalf("CreateRawGenomeWithMetadataObject failed: " + err.Error())
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}
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if (genomeIsValid == false){
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t.Fatalf("CreateRawGenomeWithMetadataObject failed: Genome is not valid.")
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}
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genomesList = append(genomesList, rawGenomeWithMetadata)
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}
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updateProgressFunction := func(_ int)error{
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return nil
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}
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checkIfProcessIsStoppedFunction := func()bool{
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return false
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}
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processCompleted, personGeneticAnalysis, err := createGeneticAnalysis.CreatePersonGeneticAnalysis(genomesList, updateProgressFunction, checkIfProcessIsStoppedFunction)
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if (err != nil){
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t.Fatalf("Failed to create person genetic analysis: " + err.Error())
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}
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if (processCompleted == false){
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t.Fatalf("Failed to create person genetic analysis: Process did not complete.")
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}
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personGeneticAnalysisMapList, err := readGeneticAnalysis.ReadGeneticAnalysisString(personGeneticAnalysis)
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if (err != nil){
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t.Fatalf("Failed to read person genetic analysis string: " + err.Error())
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}
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err = readGeneticAnalysis.ReadPersonGeneticAnalysisForTests(personGeneticAnalysisMapList)
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if (err != nil){
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t.Fatalf("Failed to read person genetic analysis: " + err.Error())
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}
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}
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func TestCreateCoupleGeneticAnalysis_SingleGenomes(t *testing.T){
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err := locusMetadata.InitializeLocusMetadataVariables()
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if (err != nil) {
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t.Fatalf("InitializeLocusMetadataVariables failed: " + err.Error())
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}
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monogenicDiseases.InitializeMonogenicDiseaseVariables()
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polygenicDiseases.InitializePolygenicDiseaseVariables()
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traits.InitializeTraitVariables()
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getPersonGenomesList := func()([]prepareRawGenomes.RawGenomeWithMetadata, error){
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genomeIdentifier, err := helpers.GetNewRandomHexString(16)
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if (err != nil) {
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return nil, errors.New("Failed to get random hex string: " + err.Error())
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}
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fakeRawGenome, _, _, _, err := createRawGenomes.CreateFakeRawGenome_AncestryDNA()
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if (err != nil) {
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return nil, errors.New("Failed to create fake raw AncestryDNA genome: " + err.Error())
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}
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genomeIsValid, rawGenomeWithMetadata, err := prepareRawGenomes.CreateRawGenomeWithMetadataObject(genomeIdentifier, fakeRawGenome)
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if (err != nil){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: " + err.Error())
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}
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if (genomeIsValid == false){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: Genome is not valid.")
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}
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personGenomesList := []prepareRawGenomes.RawGenomeWithMetadata{rawGenomeWithMetadata}
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return personGenomesList, nil
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}
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personAGenomesList, err := getPersonGenomesList()
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if (err != nil){
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t.Fatalf("getPersonGenomesList failed: " + err.Error())
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}
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personBGenomesList, err := getPersonGenomesList()
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if (err != nil){
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t.Fatalf("getPersonGenomesList failed: " + err.Error())
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}
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updateProgressFunction := func(_ int)error{
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return nil
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}
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checkIfProcessIsStoppedFunction := func()bool{
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return false
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}
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processCompleted, coupleGeneticAnalysis, err := createGeneticAnalysis.CreateCoupleGeneticAnalysis(personAGenomesList, personBGenomesList, updateProgressFunction, checkIfProcessIsStoppedFunction)
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if (err != nil){
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t.Fatalf("Failed to create couple genetic analysis: " + err.Error())
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}
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if (processCompleted == false){
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t.Fatalf("Failed to create couple genetic analysis: Process did not complete.")
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}
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coupleGeneticAnalysisMapList, err := readGeneticAnalysis.ReadGeneticAnalysisString(coupleGeneticAnalysis)
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if (err != nil){
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t.Fatalf("Failed to read couple genetic analysis string: " + err.Error())
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}
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err = readGeneticAnalysis.ReadCoupleGeneticAnalysisForTests(coupleGeneticAnalysisMapList)
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if (err != nil){
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t.Fatalf("Failed to read couple genetic analysis: " + err.Error())
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}
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}
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func TestCreateCoupleGeneticAnalysis_SingleAndMultipleGenomes(t *testing.T){
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err := locusMetadata.InitializeLocusMetadataVariables()
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if (err != nil) {
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t.Fatalf("InitializeLocusMetadataVariables failed: " + err.Error())
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}
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monogenicDiseases.InitializeMonogenicDiseaseVariables()
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polygenicDiseases.InitializePolygenicDiseaseVariables()
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traits.InitializeTraitVariables()
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getPersonGenomesList := func(addSecondGenome bool)([]prepareRawGenomes.RawGenomeWithMetadata, error){
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genomeIdentifier1, err := helpers.GetNewRandomHexString(16)
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if (err != nil) {
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return nil, errors.New("Failed to get random hex string: " + err.Error())
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}
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fakeRawGenome1, _, _, _, err := createRawGenomes.CreateFakeRawGenome_AncestryDNA()
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if (err != nil) {
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return nil, errors.New("Failed to create fake raw AncestryDNA genome: " + err.Error())
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}
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genomeIsValid, rawGenomeWithMetadata1, err := prepareRawGenomes.CreateRawGenomeWithMetadataObject(genomeIdentifier1, fakeRawGenome1)
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if (err != nil){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: " + err.Error())
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}
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if (genomeIsValid == false){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: Genome is not valid.")
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}
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genomesList := []prepareRawGenomes.RawGenomeWithMetadata{rawGenomeWithMetadata1}
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if (addSecondGenome == true){
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genomeIdentifier2, err := helpers.GetNewRandomHexString(16)
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if (err != nil) {
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return nil, errors.New("Failed to get random hex string: " + err.Error())
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}
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fakeRawGenome2, _, _, _, err := createRawGenomes.CreateFakeRawGenome_23andMe()
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if (err != nil) {
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return nil, errors.New("Failed to create fake raw 23andMe genome: " + err.Error())
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}
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genomeIsValid, rawGenomeWithMetadata2, err := prepareRawGenomes.CreateRawGenomeWithMetadataObject(genomeIdentifier2, fakeRawGenome2)
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if (err != nil){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: " + err.Error())
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}
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if (genomeIsValid == false){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: Genome is not valid.")
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}
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genomesList = append(genomesList, rawGenomeWithMetadata2)
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}
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return genomesList, nil
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}
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personAGenomesList, err := getPersonGenomesList(false)
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if (err != nil){
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t.Fatalf("getPersonGenomesList failed: " + err.Error())
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}
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personBGenomesList, err := getPersonGenomesList(true)
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if (err != nil){
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t.Fatalf("getPersonGenomesList failed: " + err.Error())
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}
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updateProgressFunction := func(_ int)error{
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return nil
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}
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checkIfProcessIsStoppedFunction := func()bool{
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return false
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}
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processCompleted, coupleGeneticAnalysis, err := createGeneticAnalysis.CreateCoupleGeneticAnalysis(personAGenomesList, personBGenomesList, updateProgressFunction, checkIfProcessIsStoppedFunction)
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if (err != nil){
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t.Fatalf("Failed to create couple genetic analysis: " + err.Error())
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}
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if (processCompleted == false){
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t.Fatalf("Failed to create couple genetic analysis: Process did not complete.")
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}
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coupleGeneticAnalysisMapList, err := readGeneticAnalysis.ReadGeneticAnalysisString(coupleGeneticAnalysis)
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if (err != nil){
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t.Fatalf("Failed to read couple genetic analysis string: " + err.Error())
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}
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err = readGeneticAnalysis.ReadCoupleGeneticAnalysisForTests(coupleGeneticAnalysisMapList)
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if (err != nil){
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t.Fatalf("Failed to read couple genetic analysis: " + err.Error())
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}
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}
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func TestCreateCoupleGeneticAnalysis_MultipleGenomes(t *testing.T){
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err := locusMetadata.InitializeLocusMetadataVariables()
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if (err != nil) {
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t.Fatalf("InitializeLocusMetadataVariables failed: " + err.Error())
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}
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monogenicDiseases.InitializeMonogenicDiseaseVariables()
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polygenicDiseases.InitializePolygenicDiseaseVariables()
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traits.InitializeTraitVariables()
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getPersonGenomesList := func()([]prepareRawGenomes.RawGenomeWithMetadata, error){
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genomeIdentifier1, err := helpers.GetNewRandomHexString(16)
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if (err != nil) {
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return nil, errors.New("Failed to get random hex string: " + err.Error())
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}
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fakeRawGenome1, _, _, _, err := createRawGenomes.CreateFakeRawGenome_AncestryDNA()
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if (err != nil) {
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return nil, errors.New("Failed to create fake raw AncestryDNA genome: " + err.Error())
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}
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genomeIsValid, rawGenomeWithMetadata1, err := prepareRawGenomes.CreateRawGenomeWithMetadataObject(genomeIdentifier1, fakeRawGenome1)
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if (err != nil){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: " + err.Error())
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}
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if (genomeIsValid == false){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: Genome is not valid.")
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}
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genomeIdentifier2, err := helpers.GetNewRandomHexString(16)
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if (err != nil) {
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return nil, errors.New("Failed to get random hex string: " + err.Error())
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}
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fakeRawGenome2, _, _, _, err := createRawGenomes.CreateFakeRawGenome_23andMe()
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if (err != nil) {
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return nil, errors.New("Failed to create fake raw 23andMe genome: " + err.Error())
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}
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genomeIsValid, rawGenomeWithMetadata2, err := prepareRawGenomes.CreateRawGenomeWithMetadataObject(genomeIdentifier2, fakeRawGenome2)
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if (err != nil){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: " + err.Error())
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}
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if (genomeIsValid == false){
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return nil, errors.New("CreateRawGenomeWithMetadataObject failed: Genome is not valid.")
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}
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genomesList := []prepareRawGenomes.RawGenomeWithMetadata{rawGenomeWithMetadata1, rawGenomeWithMetadata2}
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return genomesList, nil
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}
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personAGenomesList, err := getPersonGenomesList()
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if (err != nil){
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t.Fatalf("getPersonGenomesList failed: " + err.Error())
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}
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personBGenomesList, err := getPersonGenomesList()
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if (err != nil){
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t.Fatalf("getPersonGenomesList failed: " + err.Error())
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}
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updateProgressFunction := func(_ int)error{
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return nil
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}
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checkIfProcessIsStoppedFunction := func()bool{
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return false
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}
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processCompleted, coupleGeneticAnalysis, err := createGeneticAnalysis.CreateCoupleGeneticAnalysis(personAGenomesList, personBGenomesList, updateProgressFunction, checkIfProcessIsStoppedFunction)
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if (err != nil){
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t.Fatalf("Failed to create couple genetic analysis: " + err.Error())
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}
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if (processCompleted == false){
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t.Fatalf("Failed to create couple genetic analysis: Process did not complete.")
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}
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coupleGeneticAnalysisMapList, err := readGeneticAnalysis.ReadGeneticAnalysisString(coupleGeneticAnalysis)
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if (err != nil){
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t.Fatalf("Failed to read couple genetic analysis string: " + err.Error())
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}
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err = readGeneticAnalysis.ReadCoupleGeneticAnalysisForTests(coupleGeneticAnalysisMapList)
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if (err != nil){
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t.Fatalf("Failed to read couple genetic analysis: " + err.Error())
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}
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}
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