From 1238d79cba97d3d62cfa3d097967c3d907cb2ce4 Mon Sep 17 00:00:00 2001
From: Andrew Wen <Andrew.Wen@uth.tmc.edu>
Date: Wed, 6 Sep 2023 10:45:55 -0500
Subject: [PATCH] Fix non-serializable InputColumn use when expecting
 serializable

---
 pom.xml                                                        | 2 +-
 .../ohnlp/medtagger/backbone/SectionResolutionTransform.java   | 3 ++-
 2 files changed, 3 insertions(+), 2 deletions(-)

diff --git a/pom.xml b/pom.xml
index 3be1735..d852e7c 100644
--- a/pom.xml
+++ b/pom.xml
@@ -6,7 +6,7 @@
 
     <groupId>org.ohnlp.medtagger</groupId>
     <artifactId>medtagger</artifactId>
-    <version>1.0.68</version>
+    <version>1.0.69</version>
     <description>The MedTagger biomedical information extraction pipeline</description>
 
 
diff --git a/src/main/java/org/ohnlp/medtagger/backbone/SectionResolutionTransform.java b/src/main/java/org/ohnlp/medtagger/backbone/SectionResolutionTransform.java
index a369760..b0f64da 100644
--- a/src/main/java/org/ohnlp/medtagger/backbone/SectionResolutionTransform.java
+++ b/src/main/java/org/ohnlp/medtagger/backbone/SectionResolutionTransform.java
@@ -50,10 +50,11 @@ public PCollection<Row> expand(PCollection<Row> input) {
         Schema returnSchema = Schema.of(
                 Schema.Field.of("header", Schema.FieldType.STRING),
                 Schema.Field.of("count", Schema.FieldType.INT32));
+        String col = noteText.getSourceColumnName();
         return input.apply("Extract Header Candidates", ParDo.of(new DoFn<Row, KV<String, Integer>>() {
             @ProcessElement
             public void process(ProcessContext pc) {
-                String raw = pc.element().getString(noteText.getSourceColumnName());
+                String raw = pc.element().getString(col);
                 if (raw == null) {
                     return;
                 }