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cBioPortal for Cancer Genomics
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Mutated-genes endpoint in legacy sometimes returns qValue (investigate) #11017

Open alisman opened 3 hours ago

alisman commented 3 hours ago

https://rfc80-msk.cbioportal.aws.mskcc.org/study/summary?id=gbc_msk_chile_2021%2Cblca_mskcc_solit_2014%2Cblca_tcga

image

alisman commented 3 hours ago

@haynescd you won't be able to access this url but you could look in code to see condition where we get a qValue like this

alisman commented 2 hours ago

@haynescd so strange. qValue is only added on a handful of the items and only when certain filters are in effect. like 

curl 'https://rfc80-msk.cbioportal.aws.mskcc.org/api/mutated-genes/fetch?' \
  -H 'Accept: */*' \
  -H 'Accept-Language: en-US,en;q=0.9' \
  -H 'Cache-Control: no-cache' \
  -H 'Connection: keep-alive' \
  -H 'Content-Type: application/json' \
  -H 'Cookie: _ga_LB29LB9PS2=GS1.1.1712000762.1.0.1712000766.0.0.0; _ga_N6EV8C84KY=GS1.1.1714435879.2.0.1714435879.0.0.0; coveo_visitorId=0b9a7c62-fdfe-47e6-b1cc-e903bf33ad26; userty.core.p.d22024=__2VySWQiOiI1Yzc2YTczNTFjNjQ1ZGQzMjA3OWI3NWU2MmE3YTAwMCJ9eyJ1c; tc_ptidexpiry=1778351835708; tc_ptid=5WEIme3xua0dIAFpNgEAxN; _ga_HPYH27YNE3=GS1.1.1716255222.1.0.1716255222.0.0.0; _ga=GA1.1.163769939.1712000763; _ga_CKJ2CEEFD8=GS1.1.1724174192.46.0.1724174192.0.0.0; _hp2_id.2180195948=%7B%22userId%22%3A%225499977044862341%22%2C%22pageviewId%22%3A%226863085932911654%22%2C%22sessionId%22%3A%224666517118119177%22%2C%22identity%22%3Anull%2C%22trackerVersion%22%3A%224.0%22%7D; _ga_NYZWPZRHYX=deleted; _ga_NYZWPZRHYX=deleted; _ga_NYZWPZRHYX=deleted; _hp2_id.69218401=%7B%22userId%22%3A%221255493856455766%22%2C%22pageviewId%22%3A%224217594377119487%22%2C%22sessionId%22%3A%228930771349779309%22%2C%22identity%22%3A%221255493856455766%22%2C%22trackerVersion%22%3A%224.0%22%2C%22identityField%22%3Anull%2C%22isIdentified%22%3A1%7D; tc_q=; invoca_session=%7B%22ttl%22%3A%222024-10-23T22%3A05%3A20.245Z%22%2C%22session%22%3A%7B%22invoca_id%22%3A%22i-e7db03bc-c777-4000-990f-5a712e09e7cd%22%7D%2C%22config%22%3A%7B%22ce%22%3Atrue%2C%22fv%22%3Afalse%2C%22rn%22%3Afalse%7D%7D; SESSION=NzAzODE5ODEtOWU4YS00ZDU5LTlkYWQtNDliODAxMDc1NzBl; _ga_NYZWPZRHYX=GS1.1.1727211332.77.1.1727213899.0.0.0' \
  -H 'Origin: https://rfc80-msk.cbioportal.aws.mskcc.org' \
  -H 'Pragma: no-cache' \
  -H 'Referer: https://rfc80-msk.cbioportal.aws.mskcc.org/study/summary?id=gbc_msk_chile_2021%2Cblca_mskcc_solit_2014%2Cblca_tcga' \
  -H 'Sec-Fetch-Dest: empty' \
  -H 'Sec-Fetch-Mode: cors' \
  -H 'Sec-Fetch-Site: same-origin' \
  -H 'User-Agent: Mozilla/5.0 (Macintosh; Intel Mac OS X 10_15_7) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/128.0.0.0 Safari/537.36' \
  -H 'X-Requested-With: XMLHttpRequest' \
  -H 'sec-ch-ua: "Chromium";v="128", "Not;A=Brand";v="24", "Google Chrome";v="128"' \
  -H 'sec-ch-ua-mobile: ?0' \
  -H 'sec-ch-ua-platform: "macOS"' \
  --data-raw '{"clinicalDataFilters":[{"attributeId":"SAMPLE_TYPE","values":[{"value":"Primary"}]}],"geneFilters":[{"molecularProfileIds":["blca_mskcc_solit_2014_mutations","blca_tcga_mutations","gbc_msk_chile_2021_mutations"],"geneQueries":[[{"hugoGeneSymbol":"ARID1A","entrezGeneId":0,"alterations":[],"includeDriver":true,"includeVUS":true,"includeUnknownOncogenicity":true,"tiersBooleanMap":{},"includeUnknownTier":true,"includeGermline":true,"includeSomatic":true,"includeUnknownStatus":true}]]}],"sampleIdentifiers":[{"sampleId":"TCGA-2F-A9KO-01","studyId":"blca_tcga"},{"sampleId":"TCGA-2F-A9KP-01","studyId":"blca_tcga"},{"sampleId":"TCGA-2F-A9KQ-01","studyId":"blca_tcga"},{"sampleId":"TCGA-2F-A9KR-01","studyId":"blca_tcga"},{"sampleId":"TCGA-2F-A9KT-01","studyId":"blca_tcga"},{"sampleId":"TCGA-2F-A9KW-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7M-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7N-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7O-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7Q-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7R-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7S-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7W-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA7Y-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA80-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA81-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA82-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA83-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA84-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA86-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA87-01","studyId":"blca_tcga"},{"sampleId":"TCGA-4Z-AA89-01","studyId":"blca_tcga"},{"sampleId":"TCGA-5N-A9KI-01","studyId":"blca_tcga"},{"sampleId":"TCGA-5N-A9KM-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BL-A0C8-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BL-A13I-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BL-A13J-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BL-A3JM-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BL-A5ZZ-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A0S7-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A0YX-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20J-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20N-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20O-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20P-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20Q-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20R-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20T-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20U-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20V-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20W-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A20X-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A2LA-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A2LB-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A2LD-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A3PH-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A3PJ-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A3PK-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A42B-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A42C-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A42E-01","studyId":"blca_tcga"},{"sampleId":"TCGA-BT-A42F-01","studyId":"blca_tcga"},{"sampleId":"TCGA-C4-A0EZ-01","studyId":"blca_tcga"},{"sampleId":"TCGA-C4-A0F0-01","studyId":"blca_tcga"},{"sampleId":"TCGA-C4-A0F1-01","studyId":"blca_tcga"},{"sampleId":"TCGA-C4-A0F6-01","studyId":"blca_tcga"},{"sampleId":"TCGA-C4-A0F7-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A1HR-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A1HS-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A27C-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A3MF-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A3MG-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A3MH-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A3MI-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A47S-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A47T-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A47V-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A47W-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A47X-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A47Y-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A5U8-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A5UA-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A7I0-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A8HX-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A8HY-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A9FF-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A9FH-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A9FL-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CF-A9FM-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CU-A0YN-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CU-A0YO-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CU-A0YR-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CU-A3KJ-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CU-A3QU-01","studyId":"blca_tcga"},{"sampleId":"TCGA-CU-A3YL-01","studyId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But then only 39 of !4k the items have qValues