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Merge pull request #96 from AkRampersad/json_output_sorting
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Added Test Result Sorting
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mihaitodor authored Feb 6, 2025
2 parents 3d004b0 + 25f9cde commit d25f44c
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2 changes: 2 additions & 0 deletions .github/workflows/cicd.yml
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Expand Up @@ -28,6 +28,8 @@ jobs:
args: --extend-ignore E501,E741

- name: Run Tests
# We don't have access to secrets when the PR is created from a fork
if: ${{ github.ref == 'refs/heads/master' && github.repository == 'FHIR/genomics-operations' }}
run: ./fetch_utilities_data.sh && python -m pytest
env:
MONGODB_READONLY_PASSWORD: ${{ secrets.MONGODB_READONLY_PASSWORD }}
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14 changes: 7 additions & 7 deletions tests/expected_outputs/find_population_dx_implications/1.json
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@@ -1,19 +1,18 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "implications",
"part": [
{
"name": "numerator",
"name": "denominator",
"valueQuantity": {
"value": 5
"value": 1116
}
},
{
"name": "denominator",
"name": "numerator",
"valueQuantity": {
"value": 1116
"value": 5
}
},
{
Expand All @@ -38,5 +37,6 @@
}
]
}
]
}
],
"resourceType": "Parameters"
}
14 changes: 7 additions & 7 deletions tests/expected_outputs/find_population_dx_implications/2.json
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@@ -1,22 +1,22 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "implications",
"part": [
{
"name": "numerator",
"name": "denominator",
"valueQuantity": {
"value": 13
"value": 1116
}
},
{
"name": "denominator",
"name": "numerator",
"valueQuantity": {
"value": 1116
"value": 13
}
}
]
}
]
}
],
"resourceType": "Parameters"
}
14 changes: 7 additions & 7 deletions tests/expected_outputs/find_population_dx_implications/3.json
Original file line number Diff line number Diff line change
@@ -1,19 +1,18 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "implications",
"part": [
{
"name": "numerator",
"name": "denominator",
"valueQuantity": {
"value": 5
"value": 1116
}
},
{
"name": "denominator",
"name": "numerator",
"valueQuantity": {
"value": 1116
"value": 5
}
},
{
Expand All @@ -38,5 +37,6 @@
}
]
}
]
}
],
"resourceType": "Parameters"
}
14 changes: 7 additions & 7 deletions tests/expected_outputs/find_population_dx_implications/4.json
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@@ -1,19 +1,18 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "implications",
"part": [
{
"name": "numerator",
"name": "denominator",
"valueQuantity": {
"value": 18
"value": 1116
}
},
{
"name": "denominator",
"name": "numerator",
"valueQuantity": {
"value": 1116
"value": 18
}
},
{
Expand Down Expand Up @@ -90,5 +89,6 @@
}
]
}
]
}
],
"resourceType": "Parameters"
}
Original file line number Diff line number Diff line change
@@ -1,26 +1,26 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "consequences",
"part": [
"parameter": [
{
"name": "numerator",
"valueQuantity": {
"value": 1
}
},
{
"name": "denominator",
"valueQuantity": {
"value": 1116
}
},
{
"name": "subject",
"valueString": "TCGA-DD-A1EH"
"name": "consequences",
"part": [
{
"name": "denominator",
"valueQuantity": {
"value": 1116
}
},
{
"name": "numerator",
"valueQuantity": {
"value": 1
}
},
{
"name": "subject",
"valueString": "TCGA-DD-A1EH"
}
]
}
]
}
]
],
"resourceType": "Parameters"
}
20 changes: 10 additions & 10 deletions tests/expected_outputs/find_population_specific_haplotypes/1.json
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@@ -1,30 +1,30 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "variants",
"part": [
{
"name": "variantItem",
"valueString": "CYP2C9 *1/*2"
},
{
"name": "numerator",
"name": "denominator",
"valueQuantity": {
"value": 1
"value": 1116
}
},
{
"name": "denominator",
"name": "numerator",
"valueQuantity": {
"value": 1116
"value": 1
}
},
{
"name": "subject",
"valueString": "NB6TK328"
},
{
"name": "variantItem",
"valueString": "CYP2C9 *1/*2"
}
]
}
]
],
"resourceType": "Parameters"
}
20 changes: 10 additions & 10 deletions tests/expected_outputs/find_population_specific_haplotypes/2.json
Original file line number Diff line number Diff line change
@@ -1,23 +1,18 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "variants",
"part": [
{
"name": "variantItem",
"valueString": "CYP2C19"
},
{
"name": "numerator",
"name": "denominator",
"valueQuantity": {
"value": 1032
"value": 1116
}
},
{
"name": "denominator",
"name": "numerator",
"valueQuantity": {
"value": 1116
"value": 1032
}
},
{
Expand Down Expand Up @@ -4147,8 +4142,13 @@
{
"name": "subject",
"valueString": "tacro9"
},
{
"name": "variantItem",
"valueString": "CYP2C19"
}
]
}
]
],
"resourceType": "Parameters"
}
Original file line number Diff line number Diff line change
@@ -1,9 +1,14 @@
{
"resourceType": "Parameters",
"parameter": [
{
"name": "haplotypes",
"part": [
{
"name": "denominator",
"valueQuantity": {
"value": 1116
}
},
{
"name": "haplotypeItem",
"valueString": "HLA-A*01 AND HLA-B*08 AND HLA-DRB1*03"
Expand All @@ -14,17 +19,12 @@
"value": 1
}
},
{
"name": "denominator",
"valueQuantity": {
"value": 1116
}
},
{
"name": "subject",
"valueString": "NB6TK328"
}
]
}
]
],
"resourceType": "Parameters"
}
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