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‎tests/data/variations.json‎

Lines changed: 18 additions & 34 deletions
Original file line numberDiff line numberDiff line change
@@ -46,34 +46,36 @@
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"comment": "BRAF V600E (genomic)",
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"vcf_expression": "7-140753336-A-T"
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},
49-
"ga4gh:VA.ruQCmfXJrEylHmOQF-1PG6bLwQesDU2g": {
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"ga4gh:VA.0ydMeUtVfU9ttSoziRnp0Nv8OMN359HC": {
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"variation": {
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"id": "ga4gh:VA.ruQCmfXJrEylHmOQF-1PG6bLwQesDU2g",
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"id": "ga4gh:VA.0ydMeUtVfU9ttSoziRnp0Nv8OMN359HC",
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"type": "Allele",
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"digest": "ruQCmfXJrEylHmOQF-1PG6bLwQesDU2g",
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"digest": "0ydMeUtVfU9ttSoziRnp0Nv8OMN359HC",
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"location": {
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"id": "ga4gh:SL.JqeJ3V-75edWj03xbzw1gtSw3qPQVV2D",
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"digest": "JqeJ3V-75edWj03xbzw1gtSw3qPQVV2D",
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"type": "SequenceLocation",
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"start": 2781703,
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"end": 2781704,
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"digest": "JqeJ3V-75edWj03xbzw1gtSw3qPQVV2D",
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"sequenceReference": {
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"type": "SequenceReference",
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"refgetAccession": "SQ.8_liLu1aycC0tPQPFmUaGXJLDs5SbPZ5"
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}
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},
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"start": 2781703,
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"end": 2781704
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},
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"state": {
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"type": "LiteralSequenceExpression",
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"sequence": "G"
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"type": "ReferenceLengthExpression",
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"length": 1,
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"sequence": "G",
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"repeatSubunitLength": 1
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}
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},
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"vcf_expression": "Y-2781704-G-G"
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},
72-
"ga4gh:VA.IM4QyU9D2kTJzeftUBBD4Vcd1peq0dn1": {
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"ga4gh:VA.R4kbmdsn5VldGrBiAaByO5N9zM3qCSFw": {
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"variation": {
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"id": "ga4gh:VA.xbX035HgURWIUAjn6x3cS26jafP8Q_bk",
76+
"id": "ga4gh:VA.R4kbmdsn5VldGrBiAaByO5N9zM3qCSFw",
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"type": "Allele",
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"digest": "xbX035HgURWIUAjn6x3cS26jafP8Q_bk",
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"digest": "R4kbmdsn5VldGrBiAaByO5N9zM3qCSFw",
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"location": {
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"id": "ga4gh:SL.sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR",
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"type": "SequenceLocation",
@@ -86,32 +88,14 @@
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"end": 2781761
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},
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"state": {
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"type": "LiteralSequenceExpression",
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"sequence": "C"
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"type": "ReferenceLengthExpression",
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"length": 1,
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"sequence": "C",
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"repeatSubunitLength": 1
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}
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},
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"vcf_expression": "Y-2781761-C-C"
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},
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"ga4gh:VA.xbX035HgURWIUAjn6x3cS26jafP8Q_bk": {
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"variation": {
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"id": "ga4gh:VA.xbX035HgURWIUAjn6x3cS26jafP8Q_bk",
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"digest": "xbX035HgURWIUAjn6x3cS26jafP8Q_bk",
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"type": "Allele",
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"location": {
101-
"id": "ga4gh:SL.sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR",
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"digest": "sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR",
103-
"type": "SequenceLocation",
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"start": 2781760,
105-
"end": 2781761,
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"sequenceReference": {
107-
"type": "SequenceReference",
108-
"refgetAccession": "SQ.8_liLu1aycC0tPQPFmUaGXJLDs5SbPZ5"
109-
}
110-
},
111-
"state": { "type": "LiteralSequenceExpression", "sequence": "C" }
112-
},
113-
"vcf_expression": "Y-2781761-C-C"
114-
},
11599
"ga4gh:VA.9VDxL0stMBOZwcTKw3yb3UoWQkpaI9OD": {
116100
"variation": {
117101
"id": "ga4gh:VA.9VDxL0stMBOZwcTKw3yb3UoWQkpaI9OD",

‎tests/unit/anyvar/cassettes/test_clients/test_put_allele_expressions[anyvar_http_client].yaml‎

Lines changed: 2 additions & 15 deletions
Original file line numberDiff line numberDiff line change
@@ -20,7 +20,7 @@ interactions:
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uri: http://localhost:8000/variation
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response:
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body:
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string: '{"messages":[],"object":{"id":"ga4gh:VA.ruQCmfXJrEylHmOQF-1PG6bLwQesDU2g","type":"Allele","digest":"ruQCmfXJrEylHmOQF-1PG6bLwQesDU2g","location":{"id":"ga4gh:SL.JqeJ3V-75edWj03xbzw1gtSw3qPQVV2D","type":"SequenceLocation","digest":"JqeJ3V-75edWj03xbzw1gtSw3qPQVV2D","sequenceReference":{"type":"SequenceReference","refgetAccession":"SQ.8_liLu1aycC0tPQPFmUaGXJLDs5SbPZ5"},"start":2781703,"end":2781704},"state":{"type":"LiteralSequenceExpression","sequence":"G"}},"object_id":"ga4gh:VA.ruQCmfXJrEylHmOQF-1PG6bLwQesDU2g"}'
23+
string: '{"messages":[],"object":{"id":"ga4gh:VA.0ydMeUtVfU9ttSoziRnp0Nv8OMN359HC","type":"Allele","digest":"0ydMeUtVfU9ttSoziRnp0Nv8OMN359HC","location":{"id":"ga4gh:SL.JqeJ3V-75edWj03xbzw1gtSw3qPQVV2D","type":"SequenceLocation","digest":"JqeJ3V-75edWj03xbzw1gtSw3qPQVV2D","sequenceReference":{"type":"SequenceReference","refgetAccession":"SQ.8_liLu1aycC0tPQPFmUaGXJLDs5SbPZ5"},"start":2781703,"end":2781704},"state":{"type":"ReferenceLengthExpression","length":1,"sequence":"G","repeatSubunitLength":1}},"object_id":"ga4gh:VA.0ydMeUtVfU9ttSoziRnp0Nv8OMN359HC"}'
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headers: {}
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status:
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code: 200
@@ -33,20 +33,7 @@ interactions:
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uri: http://localhost:8000/variation
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response:
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body:
36-
string: '{"messages":[],"object":{"id":"ga4gh:VA.xbX035HgURWIUAjn6x3cS26jafP8Q_bk","type":"Allele","digest":"xbX035HgURWIUAjn6x3cS26jafP8Q_bk","location":{"id":"ga4gh:SL.sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR","type":"SequenceLocation","digest":"sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR","sequenceReference":{"type":"SequenceReference","refgetAccession":"SQ.8_liLu1aycC0tPQPFmUaGXJLDs5SbPZ5"},"start":2781760,"end":2781761},"state":{"type":"LiteralSequenceExpression","sequence":"C"}},"object_id":"ga4gh:VA.xbX035HgURWIUAjn6x3cS26jafP8Q_bk"}'
37-
headers: {}
38-
status:
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code: 200
40-
message: OK
41-
- request:
42-
body: '{"definition": "Y-2781761-C-C", "assembly_name": "GRCh38", "input_type":
43-
"Allele"}'
44-
headers: {}
45-
method: PUT
46-
uri: http://localhost:8000/variation
47-
response:
48-
body:
49-
string: '{"messages":[],"object":{"id":"ga4gh:VA.xbX035HgURWIUAjn6x3cS26jafP8Q_bk","type":"Allele","digest":"xbX035HgURWIUAjn6x3cS26jafP8Q_bk","location":{"id":"ga4gh:SL.sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR","type":"SequenceLocation","digest":"sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR","sequenceReference":{"type":"SequenceReference","refgetAccession":"SQ.8_liLu1aycC0tPQPFmUaGXJLDs5SbPZ5"},"start":2781760,"end":2781761},"state":{"type":"LiteralSequenceExpression","sequence":"C"}},"object_id":"ga4gh:VA.xbX035HgURWIUAjn6x3cS26jafP8Q_bk"}'
36+
string: '{"messages":[],"object":{"id":"ga4gh:VA.R4kbmdsn5VldGrBiAaByO5N9zM3qCSFw","type":"Allele","digest":"R4kbmdsn5VldGrBiAaByO5N9zM3qCSFw","location":{"id":"ga4gh:SL.sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR","type":"SequenceLocation","digest":"sYiBcbbgF-1CANNCTfQ6zwZOU0iHhymR","sequenceReference":{"type":"SequenceReference","refgetAccession":"SQ.8_liLu1aycC0tPQPFmUaGXJLDs5SbPZ5"},"start":2781760,"end":2781761},"state":{"type":"ReferenceLengthExpression","length":1,"sequence":"C","repeatSubunitLength":1}},"object_id":"ga4gh:VA.R4kbmdsn5VldGrBiAaByO5N9zM3qCSFw"}'
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headers: {}
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status:
5239
code: 200

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