From 4fd607cb05df7ee95d1e75120222126a7b837435 Mon Sep 17 00:00:00 2001
From: Manuel Holtgrewe <manuel.holtgrewe@bihealth.de>
Date: Fri, 6 Sep 2024 15:54:10 +0200
Subject: [PATCH] fix: gnomAD constraints build

---
 environment.yml             | 2 +-
 rules/work/genes/gnomad.smk | 1 +
 2 files changed, 2 insertions(+), 1 deletion(-)

diff --git a/environment.yml b/environment.yml
index 44d6a60..45ba976 100644
--- a/environment.yml
+++ b/environment.yml
@@ -47,7 +47,7 @@ dependencies:
   - annonars =0.39.0
   - viguno =0.3.1
   - mehari =0.25.5
-  - varfish-server-worker =0.12.0
+  - varfish-server-worker =0.13.0
   # S3 uploads
   - s5cmd =2.1.0
   # async HTTP requests
diff --git a/rules/work/genes/gnomad.smk b/rules/work/genes/gnomad.smk
index 3e55eb3..d13e280 100644
--- a/rules/work/genes/gnomad.smk
+++ b/rules/work/genes/gnomad.smk
@@ -149,6 +149,7 @@ def run_genes_gnomad_constraints_v4_to_tsv(input, output, wildcards):
         head -n 1 {input.tsv} \
         > $TMPDIR/tmp.tsv
         tail -n +2 {input.tsv} \
+        | grep ENSG \
         | sort -k3,3r \
         | sort -k1,1 -u \
         | sed -e 's/","/"__COMMA__"/g' \