icgc-argo / workflow-roadmap

Roadmap and management for genomic data processing
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šŸ› QA - Blocked from submitting treatment with existing missing entity applied #413

Closed edsu7 closed 7 months ago

edsu7 commented 9 months ago

With the following missing entity exception in place:

{
  "_id": "65bd22fc5f96a603d69a17fb",
  "donorSubmitterIds": [
    "TEST_SUBMITTER_DONOR_ID_bgxtctlygi",
    "TEST_SUBMITTER_DONOR_ID_rxywjolycc"
  ],
  "programId": "SEQ-CA"
}

When trying to submit the following TSV:

program_id  submitter_donor_id  submitter_treatment_id  submitter_primary_diagnosis_id  treatment_type  is_primary_treatment    line_of_treatment   treatment_start_interval    treatment_duration  days_per_cycle  number_of_cycles    treatment_intent    treatment_setting   response_to_treatment_criteria_method   response_to_treatment   outcome_of_treatment    toxicity_type   hematological_toxicity  non-hematological_toxicity  adverse_events  clinical_trials_database    clinical_trial_number
SEQ-CA  TEST_SUBMITTER_DONOR_ID_rxywjolycc  TEST_SUBMITTER_TREATMENT_ID_rxywjolycc  TEST_SUBMITTER_PRIMARY_DIAGNOSIS_ID_rxywjolycc  Chemotherapy    Yes     11  5   5   7   Curative    Advanced/Metastatic RECIST  Partial response    Not applicable  Not applicable          None    Not applicable  
SEQ-CA  TEST_SUBMITTER_DONOR_ID_rxywjolycc  TEST_SUBMITTER_TREATMENT_ID_rxywjolycc2 TEST_SUBMITTER_PRIMARY_DIAGNOSIS_ID_rxywjolycc  Unknown                         Unknown Unknown Unknown Unknown                         
SEQ-CA  TEST_SUBMITTER_DONOR_ID_rxywjolycc  TEST_SUBMITTER_TREATMENT_ID_rxywjolycc3 TEST_SUBMITTER_PRIMARY_DIAGNOSIS_ID_rxywjolycc  End of life care    No                      Palliative  Maintenance RECIST  Progressive disease

The following error is thrown: image

justincorrigible commented 7 months ago

Closing as Done