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Updated the importer to include the new ACMG expected fields #137

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merged 1 commit into from
Sep 13, 2023
Merged

Updated the importer to include the new ACMG expected fields #137

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4 changes: 4 additions & 0 deletions backend/src/core/phenotips_importer.py
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Original file line number Diff line number Diff line change
Expand Up @@ -76,6 +76,10 @@ def import_analysis_data(self, phenotips_json_data, phenotips_variants, phenotip
{"type": "section-text", "field": 'Nominator', "value": []},
{"type": "section-text", "field": 'Participant', "value": []},
{"type": "section-text", "field": 'Phenotype', "value": []},
{"type": "section-text", "field": 'ACMG Classification', "value": []},
{"type": "section-text", "field": 'ACMG Classification Criteria', "value": []},
{"type": "section-text", "field": 'ACMG Criteria To Add', "value": []},
{"type": "section-text", "field": 'Decision', "value": []},
]
}, {
"header": 'Clinical History', "content": [
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87 changes: 86 additions & 1 deletion etc/fixtures/initial-seed/analyses.json
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Original file line number Diff line number Diff line change
Expand Up @@ -54,6 +54,21 @@
"field": "Phenotype",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification Criteria",
"value": []
},
{
"type": "section-text",
"field": "ACMG Criteria To Add",
"value": []
},
{
"type": "section-text",
"field": "Decision",
Expand Down Expand Up @@ -275,6 +290,21 @@
"field": "Phenotype",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification Criteria",
"value": []
},
{
"type": "section-text",
"field": "ACMG Criteria To Add",
"value": []
},
{
"type": "section-text",
"field": "Decision",
Expand Down Expand Up @@ -487,6 +517,21 @@
"field": "Phenotype",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification Criteria",
"value": []
},
{
"type": "section-text",
"field": "ACMG Criteria To Add",
"value": []
},
{
"type": "section-text",
"field": "Decision",
Expand Down Expand Up @@ -711,6 +756,21 @@
"field": "Phenotype",
"value": ["Postural instability, delayed gross motor development, generalized hypotonia, generalized hypotonia due to defect at the neuromuscular junction, motor delay, abnormality of the dentate nucleus, abnormality of the periventricular white matter, poor motor coordination, and congenital nystagmus "]
},
{
"type": "section-text",
"field": "ACMG Classification",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification Criteria",
"value": []
},
{
"type": "section-text",
"field": "ACMG Criteria To Add",
"value": []
},
{
"type": "section-text",
"field": "Decision",
Expand Down Expand Up @@ -910,6 +970,21 @@
"field": "Phenotype",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification Criteria",
"value": []
},
{
"type": "section-text",
"field": "ACMG Criteria To Add",
"value": []
},
{
"type": "section-text",
"field": "Decision",
Expand Down Expand Up @@ -1168,7 +1243,17 @@
},
{
"type": "section-text",
"field": "Decision",
"field": "ACMG Classification",
"value": []
},
{
"type": "section-text",
"field": "ACMG Classification Criteria",
"value": []
},
{
"type": "section-text",
"field": "ACMG Criteria To Add",
"value": []
},
{
Expand Down