From 12db28964f201d70636961c65c841b07a0e52513 Mon Sep 17 00:00:00 2001
From: meek0 <cedricgfont@gmail.com>
Date: Fri, 10 Jan 2025 08:53:55 -0500
Subject: [PATCH] fix: CLIN-2536 glow register for GenomicImplicts.vcf

---
 .../ferlab/datalake/spark3/implicits/GenomicImplicits.scala    | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/datalake-spark3/src/main/scala/bio/ferlab/datalake/spark3/implicits/GenomicImplicits.scala b/datalake-spark3/src/main/scala/bio/ferlab/datalake/spark3/implicits/GenomicImplicits.scala
index 4aec8f8e..e16add6e 100644
--- a/datalake-spark3/src/main/scala/bio/ferlab/datalake/spark3/implicits/GenomicImplicits.scala
+++ b/datalake-spark3/src/main/scala/bio/ferlab/datalake/spark3/implicits/GenomicImplicits.scala
@@ -812,7 +812,8 @@ object GenomicImplicits {
   def vcf(input: String, referenceGenomePath: Option[String], optional: Boolean, split: Boolean)(implicit spark: SparkSession): DataFrame = {
     try {
       val inputs = input.split(",")
-      val df = spark.read
+      val sess = Glow.register(spark)
+      val df = sess.read
         .format("vcf")
         .option("flattenInfoFields", "true")
         .load(inputs: _*)