From b91689ae2b509454d74ac1723ef92e704b471762 Mon Sep 17 00:00:00 2001
From: Kyle Ferriter <kferrite@broadinstitute.org>
Date: Wed, 8 Oct 2025 13:12:34 -0400
Subject: [PATCH 1/2] Add misc/clinvar-vrsification

---
 misc/clinvar-vrsification | 24 ++++++++++++++++++++++++
 1 file changed, 24 insertions(+)
 create mode 100644 misc/clinvar-vrsification

diff --git a/misc/clinvar-vrsification b/misc/clinvar-vrsification
new file mode 100644
index 0000000..6bfd7a4
--- /dev/null
+++ b/misc/clinvar-vrsification
@@ -0,0 +1,24 @@
+#!/bin/bash
+
+if [ $# -lt 1 ]; then
+    echo "Usage: $0 RELEASE_DATE" >&2
+    exit 1
+fi
+
+release_date="$1"
+
+bucket_root="clinvar-gks/${release_date}/dev"
+gs_prefix="gs://${bucket_root}"
+input_file="${gs_prefix}/vi.jsonl.gz"
+log_file="${release_date}-noliftover.log"
+
+uv run python clinvar_gk_pilot/main.py \
+    --filename "${input_file}" \
+    --parallelism 2 2>&1 \
+    | tee "${log_file}"
+
+outfile="output/buckets/${bucket_root}/vi.jsonl.gz"
+dest_path="${gs_prefix}/vi-normalized-no-liftover.jsonl.gz"
+
+gcloud storage cp "${outfile}" "${dest_path}"
+echo "Wrote to ${dest_path}"

From b3dd64e1c4f383910b9996bff7ec3174cf920474 Mon Sep 17 00:00:00 2001
From: Kyle Ferriter <kferrite@broadinstitute.org>
Date: Wed, 8 Oct 2025 13:17:28 -0400
Subject: [PATCH 2/2] Fail on errors in misc/clinvar-vrsification

---
 misc/clinvar-vrsification | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/misc/clinvar-vrsification b/misc/clinvar-vrsification
index 6bfd7a4..ef4caa0 100644
--- a/misc/clinvar-vrsification
+++ b/misc/clinvar-vrsification
@@ -1,5 +1,7 @@
 #!/bin/bash
 
+set -euo pipefail
+
 if [ $# -lt 1 ]; then
     echo "Usage: $0 RELEASE_DATE" >&2
     exit 1