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gabriela-reznikgabriela-reznik
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Bug fix test (#1503)
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2 files changed

+231
-18
lines changed

2 files changed

+231
-18
lines changed

‎src/python/test/expression_test_assets/expression_test_expected_output_dict.py‎

Lines changed: 230 additions & 17 deletions
Original file line numberDiff line numberDiff line change
@@ -67,53 +67,266 @@
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"test_vizpayloadbuilder_annotation_feature_name": {
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"expected_data_output": [
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{
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"feature_id": "ENST00000318560",
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"sample_id": "sample_3",
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"expression": 56,
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"feature_id": "ENST00000300305",
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"sample_id": "sample_1",
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"expression": 57,
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},
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{
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"feature_id": "ENST00000318560",
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"feature_id": "ENST00000300305",
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"sample_id": "sample_2",
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"expression": 24,
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"expression": 40,
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},
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{
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"feature_id": "ENST00000318560",
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"feature_id": "ENST00000300305",
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"sample_id": "sample_3",
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"expression": 87,
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},
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{
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"feature_id": "ENST00000344691",
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"sample_id": "sample_1",
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"expression": 20,
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},
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{
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"feature_id": "ENST00000344691",
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"sample_id": "sample_2",
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"expression": 39,
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},
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{
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"feature_id": "ENST00000372348",
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"feature_id": "ENST00000344691",
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"sample_id": "sample_3",
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"expression": 90,
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"expression": 35,
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},
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{
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"feature_id": "ENST00000358356",
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"sample_id": "sample_1",
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"expression": 41,
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},
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{
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"feature_id": "ENST00000358356",
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"sample_id": "sample_2",
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"expression": 66,
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},
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{
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"feature_id": "ENST00000372348",
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"feature_id": "ENST00000358356",
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"sample_id": "sample_3",
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"expression": 56,
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},
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{
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"feature_id": "ENST00000399237",
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"sample_id": "sample_1",
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"expression": 35,
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},
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{
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"feature_id": "ENST00000399237",
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"sample_id": "sample_2",
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"expression": 30,
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},
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{
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"feature_id": "ENST00000399237",
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"sample_id": "sample_3",
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"expression": 15,
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},
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{
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"feature_id": "ENST00000399240",
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"sample_id": "sample_1",
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"expression": 17,
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},
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{
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"feature_id": "ENST00000399240",
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"sample_id": "sample_2",
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"expression": 40,
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},
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{
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"feature_id": "ENST00000372348",
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"feature_id": "ENST00000399240",
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"sample_id": "sample_3",
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"expression": 50,
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},
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{
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"feature_id": "ENST00000416754",
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"sample_id": "sample_1",
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"expression": 87,
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"expression": 73,
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},
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{
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"feature_id": "ENST00000393293",
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"feature_id": "ENST00000416754",
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"sample_id": "sample_2",
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"expression": 11,
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"expression": 99,
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},
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{
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"feature_id": "ENST00000416754",
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"sample_id": "sample_3",
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"expression": 68,
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},
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{
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"feature_id": "ENST00000437180",
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"sample_id": "sample_1",
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"expression": 31,
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},
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{
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"feature_id": "ENST00000437180",
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"sample_id": "sample_2",
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"expression": 62,
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},
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{
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"feature_id": "ENST00000393293",
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"feature_id": "ENST00000437180",
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"sample_id": "sample_3",
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"expression": 33,
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},
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{
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"feature_id": "ENST00000455571",
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"sample_id": "sample_1",
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"expression": 40,
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},
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{
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"feature_id": "ENST00000393293",
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"feature_id": "ENST00000455571",
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"sample_id": "sample_2",
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"expression": 52,
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},
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{
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"feature_id": "ENST00000455571",
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"sample_id": "sample_3",
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"expression": 51,
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},
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{
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"feature_id": "ENST00000460207",
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"sample_id": "sample_1",
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"expression": 45,
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},
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{
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"feature_id": "ENST00000460207",
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"sample_id": "sample_2",
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"expression": 87,
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},
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{"feature_id": "ENST00000460207", "sample_id": "sample_3", "expression": 9},
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{
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"feature_id": "ENST00000467577",
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"sample_id": "sample_1",
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"expression": 17,
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},
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{
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"feature_id": "ENST00000467577",
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"sample_id": "sample_2",
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"expression": 64,
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},
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{
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"feature_id": "ENST00000467577",
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"sample_id": "sample_3",
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"expression": 54,
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},
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{
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"feature_id": "ENST00000467692",
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"sample_id": "sample_1",
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"expression": 61,
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},
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{
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"feature_id": "ENST00000467692",
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"sample_id": "sample_2",
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"expression": 48,
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},
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{"feature_id": "ENST00000467692", "sample_id": "sample_3", "expression": 9},
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{
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"feature_id": "ENST00000468726",
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"sample_id": "sample_1",
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"expression": 65,
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},
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{
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"feature_id": "ENST00000468726",
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"sample_id": "sample_2",
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"expression": 14,
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},
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{
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"feature_id": "ENST00000468726",
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"sample_id": "sample_3",
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"expression": 81,
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},
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{
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"feature_id": "ENST00000469087",
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"sample_id": "sample_1",
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"expression": 84,
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},
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{
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"feature_id": "ENST00000469087",
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"sample_id": "sample_2",
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"expression": 14,
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},
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{
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"feature_id": "ENST00000469087",
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"sample_id": "sample_3",
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"expression": 56,
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},
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{
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"feature_id": "ENST00000475045",
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"sample_id": "sample_1",
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"expression": 93,
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},
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{
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"feature_id": "ENST00000475045",
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"sample_id": "sample_2",
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"expression": 39,
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},
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{
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"feature_id": "ENST00000475045",
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"sample_id": "sample_3",
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"expression": 48,
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},
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{
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"feature_id": "ENST00000479325",
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"sample_id": "sample_1",
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"expression": 49,
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},
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{
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"feature_id": "ENST00000479325",
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"sample_id": "sample_2",
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"expression": 85,
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},
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{
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"feature_id": "ENST00000479325",
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"sample_id": "sample_3",
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"expression": 66,
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},
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{"feature_id": "ENST00000482318", "sample_id": "sample_1", "expression": 2},
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{
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"feature_id": "ENST00000482318",
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"sample_id": "sample_2",
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"expression": 64,
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},
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{
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"feature_id": "ENST00000482318",
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"sample_id": "sample_3",
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"expression": 71,
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},
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{
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"feature_id": "ENST00000494829",
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"sample_id": "sample_1",
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"expression": 76,
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},
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{
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"feature_id": "ENST00000494829",
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"sample_id": "sample_2",
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"expression": 20,
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},
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{
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"feature_id": "ENST00000494829",
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"sample_id": "sample_3",
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"expression": 32,
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},
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{
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"feature_id": "ENST00000675419",
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"sample_id": "sample_1",
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"expression": 99,
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},
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{
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"feature_id": "ENST00000675419",
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"sample_id": "sample_2",
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"expression": 54,
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},
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{
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"feature_id": "ENST00000675419",
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"sample_id": "sample_3",
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"expression": 13,
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},
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],
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"expected_sql_output": "SELECT `expression_1`.`feature_id` AS `feature_id`, `expression_1`.`sample_id` AS `sample_id`, `expression_1`.`value` AS `expression` FROM `database_gzky7400vgpyzy621q43gkkf__molecular_expression1_db`.`expression` AS `expression_1` LEFT OUTER JOIN `database_gzky7400vgpyzy621q43gkkf__molecular_expression1_db`.`expr_annotation` AS `expr_annotation_1` ON `expression_1`.`feature_id` = `expr_annotation_1`.`feature_id` WHERE `expr_annotation_1`.`gene_name` IN ('ABL1') ORDER BY `feature_id` ASC, `sample_id` ASC",
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"expected_sql_output_1_1": "SELECT `expression_read_optimized_1`.`feature_id` AS `feature_id`, `expression_read_optimized_1`.`sample_id` AS `sample_id`, `expression_read_optimized_1`.`value` AS `expression` FROM `database_j29xxf80vgpgzv8x60bvfzzv__molecular_expression_1_1`.`expression_read_optimized` AS `expression_read_optimized_1` WHERE `expression_read_optimized_1`.`gene_name` IN ('ABL1') AND `expression_read_optimized_1`.`chr` = '9' AND `expression_read_optimized_1`.`bin` IN (52) ORDER BY `feature_id` ASC, `sample_id` ASC",
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"expected_sql_output": "SELECT `expression_1`.`feature_id` AS `feature_id`, `expression_1`.`sample_id` AS `sample_id`, `expression_1`.`value` AS `expression` FROM `database_gzky7400vgpyzy621q43gkkf__molecular_expression1_db`.`expression` AS `expression_1` LEFT OUTER JOIN `database_gzky7400vgpyzy621q43gkkf__molecular_expression1_db`.`expr_annotation` AS `expr_annotation_1` ON `expression_1`.`feature_id` = `expr_annotation_1`.`feature_id` WHERE `expr_annotation_1`.`gene_name` IN ('RUNX1') ORDER BY `feature_id` ASC, `sample_id` ASC",
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"expected_sql_output_1_1": "SELECT `expression_read_optimized_1`.`feature_id` AS `feature_id`, `expression_read_optimized_1`.`sample_id` AS `sample_id`, `expression_read_optimized_1`.`value` AS `expression` FROM `database_j29xxf80vgpgzv8x60bvfzzv__molecular_expression_1_1`.`expression_read_optimized` AS `expression_read_optimized_1` WHERE `expression_read_optimized_1`.`gene_name` IN ('RUNX1') AND `expression_read_optimized_1`.`chr` = '21' AND `expression_read_optimized_1`.`bin` IN (13, 14) ORDER BY `feature_id` ASC, `sample_id` ASC",
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},
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"test_vizpayloadbuilder_annotation_feature_id": {
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"expected_data_output": [

‎src/python/test/expression_test_assets/expression_test_input_dict.py‎

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -193,7 +193,7 @@
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],
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},
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"test_vizpayloadbuilder_annotation_feature_name": {
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"annotation": {"feature_name": ["ABL1"]}
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"annotation": {"feature_name": ["RUNX1"]}
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},
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"test_vizpayloadbuilder_annotation_feature_id": {
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"annotation": {"feature_id": ["ENST00000327669", "ENST00000456328"]}

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