From 4b856e02eda9db683b53943fda2c630160b8b694 Mon Sep 17 00:00:00 2001
From: Mark Walker <markw@broadinstitute.org>
Date: Mon, 26 Feb 2024 15:53:16 -0500
Subject: [PATCH] Resolve some more conflicts

---
 wdl/CrossValidateGqRecalibrator.wdl | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/wdl/CrossValidateGqRecalibrator.wdl b/wdl/CrossValidateGqRecalibrator.wdl
index 268d36954..3ee7f6064 100644
--- a/wdl/CrossValidateGqRecalibrator.wdl
+++ b/wdl/CrossValidateGqRecalibrator.wdl
@@ -34,7 +34,7 @@ workflow CrossValidateGqRecalibrator {
         CrossValidationVcfs? pre_computed_cross_validation_vcfs
     }
 
-    call train_recal.TrainGqRecalibrator {
+    call train_recal.TrainGqRecalibrator as DirectTrainGqRecalibrator {
         input:
             train_vcf=train_vcf,
             train_vcf_index=train_vcf_index,
@@ -50,7 +50,7 @@ workflow CrossValidateGqRecalibrator {
             vcf=train_vcf,
             vcf_index=train_vcf_index,
             genome_tracks=genome_tracks,
-            gq_recalibrator_model_file=TrainGqRecalibrator.output_gq_recalibrator_model_file,
+            gq_recalibrator_model_file=DirectTrainGqRecalibrator.output_gq_recalibrator_model_file,
             recalibrate_gq_args=recalibrate_gq_args,
             gatk_docker=gatk_docker,
             sv_base_mini_docker=sv_base_mini_docker,
@@ -173,7 +173,7 @@ workflow CrossValidateGqRecalibrator {
     }
 
     output {
-        File output_gq_recalibrator_model_file = TrainGqRecalibrator.output_gq_recalibrator_model_file
+        File output_gq_recalibrator_model_file = DirectTrainGqRecalibrator.output_gq_recalibrator_model_file
         File filtered_vcf = DirectGqRecalibrator.filtered_vcf
         File filtered_vcf_index = DirectGqRecalibrator.filtered_vcf_index
         File cross_validated_filtered_vcf = MergeRecalibratedTestVcfs.merged_vcf