Fix non-serializable InputColumn use when expecting serializable

OHNLP · Sep 6, 2023 · 1238d79 · 1238d79
1 parent e5b4868
commit 1238d79
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Showing 2 changed files with 3 additions and 2 deletions.
diff --git 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
@@ -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;
                 }