#!/bin/bash -euo pipefail
build_patient_id_list.py \
    --metadata dev_rna_experiments_unified_table_2026-05-29.tsv \
    --manifest analysis_manifest.tsv \
    --primary-truth truth_harmonized_calls.tsv \
    --mode recall \
    --output patient_id_list.txt \
    --audit patient_id_list_audit.tsv \
    --test-calls test_harmonized_calls.tsv \
    --alt-truth alt_truth_harmonized_calls.tsv \
    --qc-metrics qc_metrics.tsv \
    --target-experiments dev_rna_exp0016,cgp_rna_exp0034 \


cat <<-END_VERSIONS > versions.yml
"RECALL:BUILD_PATIENT_ID_LIST":
    python: $(python --version 2>&1 | sed 's/Python //')
    build_patient_id_list: "1.0.0"
END_VERSIONS