127 lines
4.1 KiB
Go
127 lines
4.1 KiB
Go
package readRawGenomes_test
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import "seekia/internal/genetics/readRawGenomes"
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import "seekia/resources/geneticReferences/locusMetadata"
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import "seekia/internal/genetics/createRawGenomes"
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import "seekia/internal/helpers"
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import "testing"
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import "strings"
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//TODO: Add some of the locusMetadata rsids to the fake files
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func TestAncestryDNAFileReading(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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fileString, expectedFileTimeUnix, numberOfAddedLoci, fileRSIDsMap, err := createRawGenomes.CreateFakeRawGenome_AncestryDNA()
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if (err != nil){
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t.Fatalf("Failed to create fake AncestryDNA genome: " + err.Error())
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}
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fileReader := strings.NewReader(fileString)
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companyName, importVersion, fileGenerationTime, fileNumberOfLoci, isPhased, genomeMap, err := readRawGenomes.ReadRawGenomeFile(fileReader)
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if (err != nil){
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t.Fatalf("Failed to read AncestryDNA file: " + err.Error())
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}
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if (companyName != "AncestryDNA"){
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t.Fatalf("Failed to read AncestryDNA file: Invalid companyName: " + companyName)
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}
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expectedImportVersion, err := readRawGenomes.GetCurrentCompanyImportVersion("AncestryDNA")
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if (err != nil){
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t.Fatalf("Failed to get AncestryDNA import version: " + err.Error())
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}
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if (importVersion != expectedImportVersion){
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t.Fatalf("AncestryDNA import version does not match.")
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}
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if (fileGenerationTime != expectedFileTimeUnix){
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t.Fatalf("AncestryDNA file generation time does not match.")
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}
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if (fileNumberOfLoci != numberOfAddedLoci){
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fileNumberOfLociString := helpers.ConvertInt64ToString(fileNumberOfLoci)
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numberOfAddedLociString := helpers.ConvertInt64ToString(numberOfAddedLoci)
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t.Fatalf("AncestryDNA number of loci does not match: " + fileNumberOfLociString + " != " + numberOfAddedLociString)
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}
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if (isPhased != false){
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t.Fatalf("AncestryDNA file isPhased status is unexpected.")
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}
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for rsid, locusValue := range genomeMap{
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expectedLocusValue, exists := fileRSIDsMap[rsid]
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if (exists == false){
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rsidString := helpers.ConvertInt64ToString(rsid)
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t.Fatalf("genomeMap contains unexpected rsid: " + rsidString)
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}
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if (locusValue != expectedLocusValue){
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t.Fatalf("genomeMap contains unexpected rsid locus value.")
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}
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}
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}
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func Test23andMeFileReading(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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newRawGenome, fileCreationTime, fileNumberOfLoci, fileRSIDsMap, err := createRawGenomes.CreateFakeRawGenome_23andMe()
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if (err != nil){
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t.Fatalf("Failed to create fake 23andMe Genome: " + err.Error())
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}
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fileReader := strings.NewReader(newRawGenome)
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companyName, importVersion, genomeGenerationTime, genomeNumberOfLoci, isPhased, genomeMap, err := readRawGenomes.ReadRawGenomeFile(fileReader)
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if (err != nil){
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t.Fatalf("Failed to read 23andMe file: " + err.Error())
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}
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if (companyName != "23andMe"){
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t.Fatalf("Failed to read 23andMe file: Invalid companyName: " + companyName)
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}
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expectedImportVersion, err := readRawGenomes.GetCurrentCompanyImportVersion("23andMe")
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if (err != nil){
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t.Fatalf("Failed to get 23andMe import version: " + err.Error())
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}
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if (importVersion != expectedImportVersion){
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t.Fatalf("23andMe import version does not match.")
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}
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if (fileCreationTime != genomeGenerationTime){
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t.Fatalf("23andMe file generation time does not match.")
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}
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if (fileNumberOfLoci != genomeNumberOfLoci){
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fileNumberOfLociString := helpers.ConvertInt64ToString(fileNumberOfLoci)
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genomeNumberOfLociString := helpers.ConvertInt64ToString(genomeNumberOfLoci)
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t.Fatalf("23andMe number of loci does not match: " + fileNumberOfLociString + " != " + genomeNumberOfLociString)
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}
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if (isPhased != false){
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t.Fatalf("23andMe file isPhased status is unexpected.")
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}
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for rsid, locusValue := range genomeMap{
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expectedLocusValue, exists := fileRSIDsMap[rsid]
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if (exists == false){
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rsidString := helpers.ConvertInt64ToString(rsid)
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t.Fatalf("genomeMap contains unexpected rsid: " + rsidString)
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}
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if (locusValue != expectedLocusValue){
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t.Fatalf("genomeMap contains unexpected rsid locus value.")
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}
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}
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}
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