diff --git a/MIMIC-IV_Example/configs/event_configs.yaml b/MIMIC-IV_Example/configs/event_configs.yaml index b7bc7b4..666bdd3 100644 --- a/MIMIC-IV_Example/configs/event_configs.yaml +++ b/MIMIC-IV_Example/configs/event_configs.yaml @@ -109,7 +109,7 @@ hosp/omr: time: col(chartdate) time_format: "%Y-%m-%d" -hosp/subjects: +hosp/patients: gender: code: - GENDER diff --git a/MIMIC-IV_Example/slurm_runner.yaml b/MIMIC-IV_Example/slurm_runner.yaml index 8d20e59..4b1e716 100644 --- a/MIMIC-IV_Example/slurm_runner.yaml +++ b/MIMIC-IV_Example/slurm_runner.yaml @@ -7,15 +7,16 @@ shard_events: launcher_params: timeout_min: 60 cpus_per_task: 10 - mem_gb: 25 + mem_gb: 40 partition: "short" split_and_shard_subjects: parallelize: + n_workers: 1 launcher_params: - timeout_min: 60 + timeout_min: 10 cpus_per_task: 10 - mem_gb: 10 + mem_gb: 7 partition: "short" convert_to_sharded_events: @@ -23,7 +24,7 @@ convert_to_sharded_events: launcher_params: timeout_min: 60 cpus_per_task: 10 - mem_gb: 10 + mem_gb: 25 partition: "short" merge_to_MEDS_cohort: @@ -31,7 +32,7 @@ merge_to_MEDS_cohort: launcher_params: timeout_min: 60 cpus_per_task: 10 - mem_gb: 10 + mem_gb: 25 partition: "short" extract_code_metadata: