From f1714280dc822105fa466a8705a5a189ba08f98a Mon Sep 17 00:00:00 2001
From: michaelgatzen <mgatzen@broadinstitute.org>
Date: Mon, 14 Mar 2022 16:27:37 -0400
Subject: [PATCH] Added JointCallExomeCNVs to dockstore.yml and included note
 in the WF (#7719)

---
 .dockstore.yml                                     | 6 ++++++
 scripts/cnv_wdl/germline/joint_call_exome_cnvs.wdl | 2 ++
 2 files changed, 8 insertions(+)

diff --git a/.dockstore.yml b/.dockstore.yml
index a19e0996de1..251a1e6d4ea 100644
--- a/.dockstore.yml
+++ b/.dockstore.yml
@@ -32,6 +32,12 @@ workflows:
      filters:
          branches:
              - master
+   - name: cnv_joint_call_exomes
+     subclass: WDL
+     primaryDescriptorPath: /scripts/cnv_wdl/germline/joint_call_exome_cnvs.wdl
+     filters:
+         branches:
+             - master
    - name: cram2filtered
      subclass: WDL
      primaryDescriptorPath: /scripts/cnn_variant_wdl/cram2filtered.wdl
diff --git a/scripts/cnv_wdl/germline/joint_call_exome_cnvs.wdl b/scripts/cnv_wdl/germline/joint_call_exome_cnvs.wdl
index ad0a06efbb1..6145866c44b 100644
--- a/scripts/cnv_wdl/germline/joint_call_exome_cnvs.wdl
+++ b/scripts/cnv_wdl/germline/joint_call_exome_cnvs.wdl
@@ -5,6 +5,8 @@ import "https://raw.githubusercontent.com/broadinstitute/gatk-sv/v0.10-beta/wdl/
 
 workflow JointCallExomeCNVs {
 
+    # NOTE: We don’t recommend using this for more than ~300 samples.
+
     ##################################
     #### required basic arguments ####
     ##################################