feat(prepro): assign segment/subtype using nextclade sort (3/n)

backend/src/main/kotlin/org/loculus/backend/api/SubmissionTypes.kt

@@ -167,6 +167,11 @@ data class ProcessedData<SequenceType>(
         description = "The key is the gene name, the value is a list of amino acid insertions",
     )
     val aminoAcidInsertions: Map<GeneName, List<Insertion>>,
+    @Schema(
+        example = """{"segment1": "fastaHeader1", "segment2": "fastaHeader2"}""",
+        description = "The key is the segment name, the value is the fastaHeader of the original Data",
+    )
+    val sequenceNameToFastaHeaderMap: Map<SegmentName, String> = emptyMap(),
     @Schema(
         example = """{"raw_reads": [{"fileId": "s0m3-uUiDd", "name": "data.fastaq"}], "sequencing_logs": []}""",
         description = "The key is the file category name, the value is a list of files, with ID and name.",

backend/src/main/kotlin/org/loculus/backend/service/submission/CompressionService.kt

@@ -118,6 +118,7 @@ class CompressionService(
                 }
             },
             processedData.aminoAcidInsertions,
+            processedData.sequenceNameToFastaHeaderMap,
             processedData.files,
         )
 
@@ -144,6 +145,7 @@ class CompressionService(
             }
         },
         processedData.aminoAcidInsertions,
+        processedData.sequenceNameToFastaHeaderMap,
         processedData.files,
     )
 

backend/src/main/kotlin/org/loculus/backend/service/submission/EmptyProcessedDataProvider.kt

@@ -20,6 +20,7 @@ class EmptyProcessedDataProvider(private val backendConfig: BackendConfig) {
             alignedAminoAcidSequences = referenceGenome.genes.map { it.name }.associateWith { null },
             nucleotideInsertions = referenceGenome.nucleotideSequences.map { it.name }.associateWith { emptyList() },
             aminoAcidInsertions = referenceGenome.genes.map { it.name }.associateWith { emptyList() },
+            sequenceNameToFastaHeaderMap = referenceGenome.nucleotideSequences.map { it.name }.associateWith { "" },
             files = null,
         )
     }

backend/src/main/kotlin/org/loculus/backend/service/submission/ProcessedSequenceEntryValidator.kt

@@ -232,6 +232,11 @@ class ProcessedSequenceEntryValidator(private val schema: Schema, private val re
             "alignedNucleotideSequences",
         )
 
+        validateNoUnknownSegment(
+            processedData.sequenceNameToFastaHeaderMap,
+            "sequenceNameToFastaHeaderMap",
+        )
+
         validateNoUnknownSegment(
             processedData.unalignedNucleotideSequences,
             "unalignedNucleotideSequences",

backend/src/main/kotlin/org/loculus/backend/service/submission/SubmissionDatabaseService.kt

@@ -461,6 +461,7 @@ class SubmissionDatabaseService(
         aminoAcidInsertions = processedData.aminoAcidInsertions.mapValues { (_, it) ->
             it.map { insertion -> insertion.copy(sequence = insertion.sequence.uppercase(Locale.US)) }
         },
+        sequenceNameToFastaHeaderMap = processedData.sequenceNameToFastaHeaderMap,
     )
 
     private fun validateExternalMetadata(

backend/src/test/kotlin/org/loculus/backend/controller/submission/PreparedProcessedData.kt

@@ -62,6 +62,7 @@ val defaultProcessedData = ProcessedData(
             Insertion(123, "RN"),
         ),
     ),
+    sequenceNameToFastaHeaderMap = mapOf(MAIN_SEGMENT to "header"),
     files = null,
 )
 
@@ -101,6 +102,7 @@ val defaultProcessedDataMultiSegmented = ProcessedData(
             Insertion(123, "RN"),
         ),
     ),
+    sequenceNameToFastaHeaderMap = mapOf("notOnlySegment" to "header1", "secondSegment" to "header2"),
     files = null,
 )
 
@@ -117,6 +119,7 @@ val defaultProcessedDataWithoutSequences = ProcessedData<GeneticSequence>(
     nucleotideInsertions = emptyMap(),
     alignedAminoAcidSequences = emptyMap(),
     aminoAcidInsertions = emptyMap(),
+    sequenceNameToFastaHeaderMap = emptyMap(),
     files = null,
 )
 

backend/src/test/kotlin/org/loculus/backend/service/ProcessedMetadataPostprocessorTest.kt

@@ -43,6 +43,7 @@ class ProcessedMetadataPostprocessorTest(
             nucleotideInsertions = emptyMap(),
             alignedAminoAcidSequences = emptyMap(),
             aminoAcidInsertions = emptyMap(),
+            sequenceNameToFastaHeaderMap = emptyMap(),
             files = null,
         )
 

backend/src/test/kotlin/org/loculus/backend/service/ProcessedSequencesPostprocessorTest.kt

@@ -91,6 +91,10 @@ class ProcessedSequencesPostprocessorTest(
                 unconfiguredPresentGene to listOf(Insertion(13, "TT")),
                 unconfiguredNullGene to emptyList(),
             ),
+            sequenceNameToFastaHeaderMap = mapOf(
+                "configuredPresentSeg" to "header1",
+                "unconfiguredPresentSeg" to "header2",
+            ),
             files = null,
         )
 

backend/src/test/kotlin/org/loculus/backend/utils/EarliestReleaseDateFinderTest.kt

@@ -62,6 +62,7 @@ fun row(
         nucleotideInsertions = emptyMap(),
         alignedAminoAcidSequences = emptyMap(),
         aminoAcidInsertions = emptyMap(),
+        sequenceNameToFastaHeaderMap = emptyMap(),
         files = null,
     ),
     isRevocation = false,

integration-tests/tests/fixtures/sequence.fixture.ts

@@ -23,16 +23,13 @@ export const test = groupTest.extend<SequenceFixtures>({
                 collectionDate: '2021-10-15',
                 authorAffiliations: 'Test Institute, France',
             });
-            const fastaHeaderL = `${submissionId}_L`;
-            const fastaHeaderM = `${submissionId}_M`;
-            const fastaHeaderS = `${submissionId}_S`;
 
             await submissionPage.fillSequenceData({
-                [fastaHeaderL]:
+                fastaHeaderL:
                     'CCACATTGACACAGANAGCTCCAGTAGTGGTTCTCTGTCCTTATTAAACCATGGACTTCTTAAGAAACCTTGACTGGACTCAGGTGATTGCTAGTCAGTATGTGACCAATCCCAGGTTTAATATCTCTGATTACTTCGAGATTGTTCGACAGCCTGGTGACGGGAACTGTTTCTACCACAGTATAGCTGAGTTAACCATGCCCAACAAAACAGATCACTCATACCATAACATCAAACATCTGACTGAGGTGGCAGCACGGAAGTATTATCAGGAGGAGCCGGAGGCTAAGCTCATTGGCCTGAGTCTGGAAGACTATCTTAAGAGGATGCTATCTGACAACGAATGGGGATCGACTCTTGAGGCATCTATGTTGGCTAAGGAAATGGGTATTACTATCATCATTTGGACTGTTGCAGCCAGTGACGAAGTGGAAGCAGGCATAAAGTTTGGTGATGGTGATGTGTTTACAGCCGTGAATCTTCTGCACTCCGGACAGACACACTTTGATGCCCTCAGAATACTGCCNCANTTTGAGGCTGACACAAGAGAGNCCTTNAGTCTGGTAGACAANNTNATAGCTGTGGACCANNTGACCTCNTCTTCAAGTGATGAANTGCAGGACTANGAAGANCTTGCTTTAGCACTTACNAGNGCGGAAGAACCATNTAGACGGTCTAGCNTGGATGAGGTNACCCTNTCTAAGAAACAAGCAGAGNTATTGAGGCAGAAGGCATCTCAGTTGTCNAAACTGGTTAATAAAAGTCAGAACATACCGACTAGAGTTGGCAGGGTTCTGGACTGTATGTTTAACTGCAAACTATGTGTTGAAATATCAGCTGACACTCTAATTCTGCGACCAGAATCTAAAGAAAGAATTGG',
-                [fastaHeaderM]:
+                fastaHeaderM:
                     'GTGGATTGAGCATCTTAATTGCAGCATACTTGTCAACATCATGCATATATCATTGATGTATGCAGTTTTCTGCTTGCAGCTGTGCGGTCTAGGGAAAACTAACGGACTACACAATGGGACTGAACACAATAAGACACACGTTATGACAACGCCTGATGACAGTCAGAGCCCTGAACCGCCAGTGAGCACAGCCCTGCCTGTCACACCGGACCCTTCCACTGTCACACCTACAACACCAGCCAGCGGATTAGAAGGCTCAGGAGAGGTTCACACATCCTCTCCAATCACCACCAAGGGTTTGTCTCTGCCGGGGGCTACATCTGAGCTCCCTGCGACTACTAGCATAGTCACTTCAGGTGCAAGTGATGCCGATTCTAGCACACAGGCAGCCAGAGACACCCCTAAACCATCAGTCCGCACGAGTCTGCCCAACAGCCCTAGCACACCATCCACACCACAAGGCACACACCATCCCGTGAGGAGTCTGCTTTCAGTCACGAGCCCTAAGCCAGAAGAAACACCAACACCGTCAAAATCAAGCAAAGATAGCTCAGCAACCAACAGTCCTCACCCAGCCGCCAGCAGACCAACAACCCCTCCCACAACAGCCCAGAGACCCGCTGAAAACAACAGCCACAACACCACCGAACAGCTTGAGTCCTTAACACAATTAGCAACTTCAGGTTCAATGATCTCTCCAACACAGACAGTCCTCCCAAAGAGTGTTACTTCTATAGCCATTCAAGACATTCATCCCAGCCCAACAAATAGGTCTAAAAGAAACCTTGATATGGAAATAATCT',
-                [fastaHeaderS]:
+                fastaHeaderS:
                     'GTGTTCTCTTGAGTGTTGGCAAAATGGAAAACAAAATCGAGGTGAACAACAAAGATGAGATGAACAAATGGTTTGAGGAGTTCAAGAAAGGAAATGGACTTGTGGACACTTTCACAAACTCNTATTCCTTTTGTGAAAGCGTNCCAAATCTGGACAGNTTTGTNTTCCAGATGGCNAGTGCCACTGATGATGCACAAAANGANTCCATCTACGCATCTGCNCTGGTGGANGCAACCAAATTTTGTGCACCTATATACGAGTGTGCTTGGGCTAGCTCCACTGGCATTGTTAAAAAGGGACTGGAGTGGTTCGAGAAAAATGCAGGAACCATTAAATCCTGGGATGAGAGTTATACTGAGCTTAAAGTTGAAGTTCCCAAAATAGAACAACTCTCCAACTACCAGCAGGCTGCTCTCAAATGGAGAAAAGACATAGGCTTCCGTGTCAATGCAAATACGGCAGCTTTGAGTAACAAAGTCCTAGCAGAGTACAAAGTTCCTGGCGAGATTGTAATGTCTGTCAAAGAGATGTTGTCAGATATGATTAGAAGNAGGAACCTGATTCTCAACAGAGGTGGTGATGAGAACCCACGCGGCCCAGTTAGCCGTGAACATGTGGAGTGGTGC',
             });
 

integration-tests/tests/readonly.setup.ts

@@ -30,17 +30,16 @@ setup('Initialize a single ebola sequence as base data', async ({ page, baseURL
     }
 
     const submissionPage = new SingleSequenceSubmissionPage(page);
-    const submissionId = 'foobar-readonly';
     const reviewPage = await submissionPage.completeSubmission(
         {
-            submissionId: submissionId,
+            submissionId: 'foobar-readonly',
             collectionCountry: 'France',
             collectionDate: '2021-05-12',
             authorAffiliations: 'Patho Institute, Paris',
             groupId: groupId.toString(),
         },
         {
-            [submissionId]:
+            fastaHeader:
                 'nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn' +
                 'ATGGATAAACGGGTGAGAGGTTCATGGGCCCTGGGAGGACAATCTGAAGTTGATCTTGACTACCACAAAA' +
                 'TATTAACAGCCGGGCTTTCGGTCCAACAAGGGATTGTGCGACAAAGAGTCATCCCGGTATATGTTGTGAG' +

integration-tests/tests/specs/features/revise-sequence.spec.ts

@@ -27,12 +27,14 @@ test('revising sequence data works: segment can be deleted; segment can be edite
     await page.getByRole('link', { name: 'Revise this sequence' }).click({ timeout: 15000 });
     await expect(page.getByRole('heading', { name: 'Create new revision from' })).toBeVisible();
 
-    await page.getByTestId(/^discard.*_L_segment_file$/).click();
-    await page.getByTestId(/^discard.*_S_segment_file$/).click();
+    await page.getByTestId(/^discard.*L\)_segment_file$/).click();
+    await page.getByTestId(/^discard.*S\)_segment_file$/).click();
+    const newSsequence =
+        'CAAATGGTTTGAGGAGTTCAAGAAAGGAAATGGACTTGTGGACACTTTCACAAACTCNTATTCCTTTTGTGAAAGCGTNCCAAATCTGGACAGNTTTGTNTTCCAGATGGCNAGTGCCACTGATGATGCACAAAANGANTCCATCTACGCATCTGCNCTGGTGGANGCAACCAAATTTTGTGCACCTATATACGAGTGTGCTTGGGCTAGCTCCACTGGCATTGTTAAAAAGGGACTGGAGTGGTTCGAGAAAAATGCAGGAACCATTAAATCCTGGGATGAGAGTTATACTGAGCTTAAAGTTGAAGTTCCCAAAATAGAACAACTCTCCAACTACCAGCAGGCTGCTCTCAAATGGAGAAAAGACATAGGCTTCCGTGTCAATGCAAATACGGCAGCTTTGAGTAACAAAGTCCTAGCAGAGTACAAAGTTCCTGGCGAGATTGTAATGTCTGTCAAAGAGATGTTGTCAGATATGATTAGAAGNAGGAACCTGATTCTCAACAGAGGTGGTGATGAGAACCCACGCGGCCCAGTTAGCCGTGAACATGTGGAGTGGTGCAGGGAATTCGTCAAAGGCAAGTACATAATGGCTTTCAACCCACCCTGGGGAGACATCAACAAGTCAGGCCGTTCAGGAATAGCACTTGTTGCAACAGGCCTTGCCAAGCTTGCAGAGACTGAAGGGAAGGGAGTTTTTGACGAAGCCAAGAAGACTATAGAGGCTCTTAACGGGTATCTGGACAAGCATAAGGATGAAGTTGACAAAGCAAGTGCCGACAGCATGATAACAAACCTCCTTAAGCACATTGCTAAGGCACAAGAGCTTTACAAAAACTCGTCTGCTCTTCGTGCTCAGGGTGCACAGATTGACACCGTCTTCAGCTCATACTACTGGCTCTACAAGGCCGGTGTGACTCCAGAGACCTTCCCGACTGTTTCACAGTTCCTTTTTGAGTTAGGGAAGCAACCAAGGGGCACCAAGAAAATGAAGAAGGCACTCCTGAGCACCCCAATGAAGTGGGGAAAGAAGCTTTATGAGCTTTTTGCTGATGATTCCTTCCAACAGAACAGGATCTACATGCACCCCGCTGTGCTAACAGCTGGCAGAATCAGTGAAATGGGTGTCTGCTTCGGAACAATCCCTGTGGCCAATCCTGATGATGCCGCCTTAGGATCTGGACACACCAAGTCCATTCTCAACCTTCGGACAAACACTGAGACCAACAATCCGTGTGCCAAGACAATTGTTAAGTTGTTTGAAATTCANAAAACAGGGTTNAACATACAGGACATGGANATTGTGGCCTCNGAGCATCTGCTGCACCAATCCCTTGTTGGCAAGCAGTCTCCATTTCAAAATGCTTACAACGTCAAGGGGAANGCCACCAGTGCCAANATCATCTAAAGCNNANAATNNTCTNCAATCAGCTTTNCC';
     await page.getByTestId('Add a segment_segment_file').setInputFiles({
         name: 'update_S.txt',
         mimeType: 'text/plain',
-        buffer: Buffer.from('>S\nAAAAA'),
+        buffer: Buffer.from('>S\n' + newSsequence),
     });
 
     await page.getByRole('button', { name: 'Submit' }).click();
@@ -50,7 +52,7 @@ test('revising sequence data works: segment can be deleted; segment can be edite
 
     expect(tabs).toContain('S (unaligned)');
     await reviewPage.switchSequenceTab('S (unaligned)');
-    expect(await reviewPage.getSequenceContent()).toBe('AAAAA');
+    expect(await reviewPage.getSequenceContent()).toBe(newSsequence);
 
     await reviewPage.closeSequencesDialog();
 });

integration-tests/tests/specs/features/search/override-hidden-fields.spec.ts

@@ -21,7 +21,8 @@ test('Override hidden fields', async ({ page, groupId }) => {
             authorAffiliations: uuid,
         },
         {
-            foo1: 'ATTGATCTCATCATTTACCAATTGGAGACCGTTTAACTAGTCAATCCCCCATTTGGGGGCATTCCTAAAGTGTTGCAAAGGTATGTGGGTCGTATTGCTTTGCCTTTTCCTAACCTGGCTCCTCCTACAATTCTAACCTGCTTGATAAGTGTGATTACCTGAGTAATAGACTAATTTCGTCCTGGTAATTAGCATTTTCTAGTAAAACCAATACTATCTCAAGTCCTAAGAGGAGGTGAGAAGAGGGTCTCGAGGTATCCCTCCAGTCCACAAAATCTAGCTAATTTTAGCTGAGTGGACTGATTACTCTCATCACACGCTAACTACTAAGGGTTTACCTGAGAGCCTACAACATGGATAAACGGGTGAGAGGTTCATGGGCCCTGGGAGGACAATCTGAAGTTGATCTTGACTACCACAAAATATTAACAGCCGGGCTTTCGGTCCAACAAGGGATTGTGCGACAAAGAGTCATCCCGGTATATGTTGTGAGTGATCTTGAGGGTATTTGTCAACATATCATTCAGGCCTTTGAAGCAGGCGTAGATTTCCAAGATAATGCTGACAGCTTCCTTTTACTTTTATGTTTACATCATGCTTACCAAGGAGATCATAGGCTCTTCCTCAAAAGTGATGCAGTTCAATACTTAGAGGGCCATGGTTTCAGGTTTGAGGTCCGAGAAAAGGAGAATGTGCACCGTCTGGATGAATTGTTGCCCAATGTCACCGGTGGAAAAAATCTTAGGAGAACATTGGCTGCAATGCCTGAAGAGGAGACAACAGAAGCTAACGCTGGTCAGTTTTTATCCTTTGCCAGTTTGTTTCTACCCAAACTTGTCGTTGGGGAGAAAGCGTGTCTGGAAAAAGTACAAAGGCAGATTCAGGTCCATGCAGAACAAGGGCTCATTCAATATCCAACTTCCTGGCAATCAGTTGGACACATGATGGTGATCTTCCGTTTGATGAGAACAAACTTTTTAATCAAGTTCCTACTAATACATCAGGGGATGCACATGG',
+            fastaHeader:
+                'ATTGATCTCATCATTTACCAATTGGAGACCGTTTAACTAGTCAATCCCCCATTTGGGGGCATTCCTAAAGTGTTGCAAAGGTATGTGGGTCGTATTGCTTTGCCTTTTCCTAACCTGGCTCCTCCTACAATTCTAACCTGCTTGATAAGTGTGATTACCTGAGTAATAGACTAATTTCGTCCTGGTAATTAGCATTTTCTAGTAAAACCAATACTATCTCAAGTCCTAAGAGGAGGTGAGAAGAGGGTCTCGAGGTATCCCTCCAGTCCACAAAATCTAGCTAATTTTAGCTGAGTGGACTGATTACTCTCATCACACGCTAACTACTAAGGGTTTACCTGAGAGCCTACAACATGGATAAACGGGTGAGAGGTTCATGGGCCCTGGGAGGACAATCTGAAGTTGATCTTGACTACCACAAAATATTAACAGCCGGGCTTTCGGTCCAACAAGGGATTGTGCGACAAAGAGTCATCCCGGTATATGTTGTGAGTGATCTTGAGGGTATTTGTCAACATATCATTCAGGCCTTTGAAGCAGGCGTAGATTTCCAAGATAATGCTGACAGCTTCCTTTTACTTTTATGTTTACATCATGCTTACCAAGGAGATCATAGGCTCTTCCTCAAAAGTGATGCAGTTCAATACTTAGAGGGCCATGGTTTCAGGTTTGAGGTCCGAGAAAAGGAGAATGTGCACCGTCTGGATGAATTGTTGCCCAATGTCACCGGTGGAAAAAATCTTAGGAGAACATTGGCTGCAATGCCTGAAGAGGAGACAACAGAAGCTAACGCTGGTCAGTTTTTATCCTTTGCCAGTTTGTTTCTACCCAAACTTGTCGTTGGGGAGAAAGCGTGTCTGGAAAAAGTACAAAGGCAGATTCAGGTCCATGCAGAACAAGGGCTCATTCAATATCCAACTTCCTGGCAATCAGTTGGACACATGATGGTGATCTTCCGTTTGATGAGAACAAACTTTTTAATCAAGTTCCTACTAATACATCAGGGGATGCACATGG',
         },
     );
     await page.goto('/');
@@ -33,7 +34,8 @@ test('Override hidden fields', async ({ page, groupId }) => {
             authorAffiliations: uuid,
         },
         {
-            foo1: 'ATTGATCTCATCATTTACCAATTGGAGACCGTTTAACTAGTCAATCCCCCATTTGGGGGCATTCCTAAAGTGTTGCAAAGGTATGTGGGTCGTATTGCTTTGCCTTTTCCTAACCTGGCTCCTCCTACAATTCTAACCTGCTTGATAAGTGTGATTACCTGAGTAATAGACTAATTTCGTCCTGGTAATTAGCATTTTCTAGTAAAACCAATACTATCTCAAGTCCTAAGAGGAGGTGAGAAGAGGGTCTCGAGGTATCCCTCCAGTCCACAAAATCTAGCTAATTTTAGCTGAGTGGACTGATTACTCTCATCACACGCTAACTACTAAGGGTTTACCTGAGAGCCTACAACATGGATAAACGGGTGAGAGGTTCATGGGCCCTGGGAGGACAATCTGAAGTTGATCTTGACTACCACAAAATATTAACAGCCGGGCTTTCGGTCCAACAAGGGATTGTGCGACAAAGAGTCATCCCGGTATATGTTGTGAGTGATCTTGAGGGTATTTGTCAACATATCATTCAGGCCTTTGAAGCAGGCGTAGATTTCCAAGATAATGCTGACAGCTTCCTTTTACTTTTATGTTTACATCATGCTTACCAAGGAGATCATAGGCTCTTCCTCAAAAGTGATGCAGTTCAATACTTAGAGGGCCATGGTTTCAGGTTTGAGGTCCGAGAAAAGGAGAATGTGCACCGTCTGGATGAATTGTTGCCCAATGTCACCGGTGGAAAAAATCTTAGGAGAACATTGGCTGCAATGCCTGAAGAGGAGACAACAGAAGCTAACGCTGGTCAGTTTTTATCCTTTGCCAGTTTGTTTCTACCCAAACTTGTCGTTGGGGAGAAAGCGTGTCTGGAAAAAGTACAAAGGCAGATTCAGGTCCATGCAGAACAAGGGCTCATTCAATATCCAACTTCCTGGCAATCAGTTGGACACATGATGGTGATCTTCCGTTTGATGAGAACAAACTTTTTAATCAAGTTCCTACTAATACATCAGGGGATGCACATGG',
+            fastaHeader:
+                'ATTGATCTCATCATTTACCAATTGGAGACCGTTTAACTAGTCAATCCCCCATTTGGGGGCATTCCTAAAGTGTTGCAAAGGTATGTGGGTCGTATTGCTTTGCCTTTTCCTAACCTGGCTCCTCCTACAATTCTAACCTGCTTGATAAGTGTGATTACCTGAGTAATAGACTAATTTCGTCCTGGTAATTAGCATTTTCTAGTAAAACCAATACTATCTCAAGTCCTAAGAGGAGGTGAGAAGAGGGTCTCGAGGTATCCCTCCAGTCCACAAAATCTAGCTAATTTTAGCTGAGTGGACTGATTACTCTCATCACACGCTAACTACTAAGGGTTTACCTGAGAGCCTACAACATGGATAAACGGGTGAGAGGTTCATGGGCCCTGGGAGGACAATCTGAAGTTGATCTTGACTACCACAAAATATTAACAGCCGGGCTTTCGGTCCAACAAGGGATTGTGCGACAAAGAGTCATCCCGGTATATGTTGTGAGTGATCTTGAGGGTATTTGTCAACATATCATTCAGGCCTTTGAAGCAGGCGTAGATTTCCAAGATAATGCTGACAGCTTCCTTTTACTTTTATGTTTACATCATGCTTACCAAGGAGATCATAGGCTCTTCCTCAAAAGTGATGCAGTTCAATACTTAGAGGGCCATGGTTTCAGGTTTGAGGTCCGAGAAAAGGAGAATGTGCACCGTCTGGATGAATTGTTGCCCAATGTCACCGGTGGAAAAAATCTTAGGAGAACATTGGCTGCAATGCCTGAAGAGGAGACAACAGAAGCTAACGCTGGTCAGTTTTTATCCTTTGCCAGTTTGTTTCTACCCAAACTTGTCGTTGGGGAGAAAGCGTGTCTGGAAAAAGTACAAAGGCAGATTCAGGTCCATGCAGAACAAGGGCTCATTCAATATCCAACTTCCTGGCAATCAGTTGGACACATGATGGTGATCTTCCGTTTGATGAGAACAAACTTTTTAATCAAGTTCCTACTAATACATCAGGGGATGCACATGG',
         },
     );
 

integration-tests/tests/specs/features/sequence-view.dependent.spec.ts

@@ -11,25 +11,21 @@ test.describe('Sequence view in review card', () => {
         test.setTimeout(120000);
         void groupId;
         const submissionPage = new SingleSequenceSubmissionPage(page);
-        const submissionId = 'TEST_SEQ_VIEW';
 
         await submissionPage.navigateToSubmissionPage('Crimean-Congo Hemorrhagic Fever Virus');
         await submissionPage.fillSubmissionForm({
-            submissionId: submissionId,
+            submissionId: 'TEST_SEQ_VIEW',
             collectionCountry: 'Brazil',
             collectionDate: '2023-01-15',
             authorAffiliations: 'Test Lab, University of Testing',
         });
-        const fastaHeaderL = `${submissionId}_L`;
-        const fastaHeaderM = `${submissionId}_M`;
-        const fastaHeaderS = `${submissionId}_S`;
 
         await submissionPage.fillSequenceData({
-            [fastaHeaderL]:
+            fastaHeaderL:
                 'CCACATTGACACAGANAGCTCCAGTAGTGGTTCTCTGTCCTTATTAAACCATGGACTTCTTAAGAAACCTTGACTGGACTCAGGTGATTGCTAGTCAGTATGTGACCAATCCC',
-            [fastaHeaderM]:
+            fastaHeaderM:
                 'GTGGATTGAGCATCTTAATTGCAGCATACTTGTCAACATCATGCATATATCATTGATGTATGCAGTTTTCTGCTTGCAGCTGTGCGGTCTAGGGAAAACTAACGGACTACACA',
-            [fastaHeaderS]:
+            fastaHeaderS:
                 'GTGTTCTCTTGAGTGTTGGCAAAATGGAAAACAAAATCGAGGTGAACAACAAAGATGAGATGAACAAATGGTTTGAGGAGTTCAAGAAAGGAAATGGACTTGTGGACACTTTC',
         });
         await submissionPage.acceptTerms();