test: add test that checks that no round-trip VARCHAR casting is perf…

…ormed
GenSpectrum · Oct 24, 2024 · daab97d · daab97d
1 parent 916f381
commit daab97d
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Showing 5 changed files with 32 additions and 1 deletion.
diff --git a/src/silo/preprocessing/preprocessor.test.cpp b/src/silo/preprocessing/preprocessor.test.cpp
@@ -324,6 +324,24 @@ const Scenario DIVERSE_SEQUENCE_NAMES_NDJSON = {
 [{"count":2}])")
 };
 
+const Scenario PREVENT_LATE_AUTO_CASTING = {
+   .input_directory = "testBaseData/autoCasting/",
+   .expected_sequence_count = 3,
+   .query = R"(
+      {
+         "action": {
+           "type": "Details",
+            "orderByFields": ["accessionVersion"]
+         },
+         "filterExpression": {
+            "type": "True"
+         }
+      }
+   )",
+   .expected_query_result = nlohmann::json::parse(R"(
+[{"accessionVersion":"0"},{"accessionVersion":"0.12"},{"accessionVersion":"text_without_quotes"}])")
+};
+
 class PreprocessorTestFixture : public ::testing::TestWithParam<Scenario> {};
 
 INSTANTIATE_TEST_SUITE_P(
@@ -345,7 +363,8 @@ INSTANTIATE_TEST_SUITE_P(
       EMPTY_INPUT_NDJSON_UNPARTITIONED,
       NO_GENES,
       NO_NUCLEOTIDE_SEQUENCES,
-      NO_SEQUENCES
+      NO_SEQUENCES,
+      PREVENT_LATE_AUTO_CASTING
    ),
    printTestName
 );

diff --git a/testBaseData/autoCasting/database_config.yaml b/testBaseData/autoCasting/database_config.yaml
@@ -0,0 +1,6 @@
+schema:
+  instanceName: Test
+  metadata:
+    - name: accessionVersion
+      type: string
+  primaryKey: accessionVersion
diff --git a/testBaseData/autoCasting/input.ndjson b/testBaseData/autoCasting/input.ndjson
@@ -0,0 +1,3 @@
+{"metadata": { "accessionVersion": 0 }, "unalignedNucleotideSequences": {}, "alignedNucleotideSequences": {}, "nucleotideInsertions": {}, "alignedAminoAcidSequences": {}, "aminoAcidInsertions": {}}
+{"metadata": { "accessionVersion": 0.12 }, "unalignedNucleotideSequences": {}, "alignedNucleotideSequences": {}, "nucleotideInsertions": {}, "alignedAminoAcidSequences": {}, "aminoAcidInsertions": {}}
+{"metadata": { "accessionVersion": "text_without_quotes" }, "unalignedNucleotideSequences": {}, "alignedNucleotideSequences": {}, "nucleotideInsertions": {}, "alignedAminoAcidSequences": {}, "aminoAcidInsertions": {}}
diff --git a/testBaseData/autoCasting/preprocessing_config.yaml b/testBaseData/autoCasting/preprocessing_config.yaml
@@ -0,0 +1,2 @@
+ndjsonInputFilename: "input.ndjson"
+referenceGenomeFilename: "reference_genomes.json"
diff --git a/testBaseData/autoCasting/reference_genomes.json b/testBaseData/autoCasting/reference_genomes.json
@@ -0,0 +1 @@
+{"genes":[],"nucleotideSequences":[]}