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curl 'http://localhost:8082/api/column-store/clinical-data-bin-counts/fetch?dataBinMethod=STATIC' -H 'accept: application/json, text/plain, */*' -H 'accept-language: en-US,en;q=0.9' -H 'cache-control: no-cache' -H 'content-type: application/json' -H 'cookie: _ga_ET18FDC3P1=GS1.1.1727902893.87.0.1727902893.0.0.0; _gid=GA1.2.1570078648.1728481898; _ga_CKJ2CEEFD8=GS1.1.1728589307.172.1.1728589613.0.0.0; _ga_5260NDGD6Z=GS1.1.1728612388.318.1.1728612389.0.0.0; _gat_gtag_UA_17134933_2=1; _ga=GA1.1.1260093286.1710808634; _ga_334HHWHCPJ=GS1.1.1728647421.32.1.1728647514.0.0.0' -H 'pragma: no-cache' -H 'priority: u=1, i' -H 'sec-ch-ua: "Google Chrome";v="129", "Not=A?Brand";v="8", "Chromium";v="129"' -H 'sec-ch-ua-mobile: ?0' -H 'sec-ch-ua-platform: "macOS"' -H 'sec-fetch-dest: empty' -H 'user-agent: Mozilla/5.0 (Macintosh; Intel Mac OS X 10_15_7) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/129.0.0.0 Safari/537.36' --data-raw '{"studyViewFilter":{"studyIds":["aml_ohsu_2022","aml_ohsu_2018","laml_tcga"],"alterationFilter":{"copyNumberAlterationEventTypes":{"AMP":true,"HOMDEL":true},"mutationEventTypes":{"any":true},"includeDriver":true,"includeSomatic":true,"includeUnknownTier":true,"includeGermline":true,"includeUnknownStatus":true,"includeUnknownOncogenicity":true,"includeVUS":true},"clinicalDataFilters":[{"attributeId":"CANCER_TYPE_DETAILED","values":[{"value":"Acute Myeloid Leukemia"},{"value":"Therapy-Related Myeloid Neoplasms"}]}]},"attributes":[{"attributeId":"MUTATION_COUNT","showNA":false,"disableLogScale":false},{"attributeId":"FRACTION_GENOME_ALTERED","showNA":false,"disableLogScale":false},{"attributeId":"AGE","showNA":false,"disableLogScale":false},{"attributeId":"ABNORMAL_LYMPHOCYTE_PERCENT","showNA":false,"disableLogScale":false},{"attributeId":"AGE_AT_DIAGNOSIS","showNA":false,"disableLogScale":false},{"attributeId":"AGE_AT_PROCUREMENT","showNA":false,"disableLogScale":false},{"attributeId":"AGE_AT_SPECIMEN_ACQUISITION","showNA":false,"disableLogScale":false},{"attributeId":"PB_ALT_LEVEL","showNA":false,"disableLogScale":false},{"attributeId":"PB_ALBUMIN_LEVEL","showNA":false,"disableLogScale":false},{"attributeId":"PB_AST_LEVEL","showNA":false,"disableLogScale":false}]}';
The text was updated successfully, but these errors were encountered:
These are the 9 samples reported by the legacy
When we query the clinical_data_derived database (clickhouse) for these ids we end up with 7 patients/samples
clinical_data_derived
SELECT patient_unique_id, sample_unique_id, attribute_value FROM cgds_public_v5.clinical_data_derived WHERE attribute_name='AGE_AT_DIAGNOSIS' AND ( patient_unique_id IN ( 'aml_ohsu_2018_aml_ohsu_2018_1561', 'aml_ohsu_2022_aml_ohsu_2022_2394', 'aml_ohsu_2018_aml_ohsu_2018_953', 'aml_ohsu_2018_aml_ohsu_2018_2420', 'aml_ohsu_2018_aml_ohsu_2018_2495', 'aml_ohsu_2022_aml_ohsu_2022_2090' ) OR sample_unique_id IN ( 'aml_ohsu_2018_aml_ohsu_2018_14-00289', 'aml_ohsu_2018_aml_ohsu_2018_14-00676', 'aml_ohsu_2022_aml_ohsu_2022_2394_BA2220', 'aml_ohsu_2022_aml_ohsu_2022_2394_BA2720', 'aml_ohsu_2018_aml_ohsu_2018_13-00028', 'aml_ohsu_2018_aml_ohsu_2018_15-00900', 'aml_ohsu_2018_aml_ohsu_2018_15-00988', 'aml_ohsu_2018_aml_ohsu_2018_16-00087', 'aml_ohsu_2022_aml_ohsu_2022_2090_BA2911' ) )
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The text was updated successfully, but these errors were encountered: