Forgot to actually invoke the method to clean PackageRefs.
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@ -28,6 +28,7 @@ namespace Microsoft.DotNet.ProjectJsonMigration.Rules
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var propertyGroup = migrationRuleInputs.CommonPropertyGroup;
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CleanExistingProperties(csproj);
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CleanExistingPackageReferences(csproj);
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_transformApplicator.Execute(
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FrameworksTransform.Transform(migrationRuleInputs.ProjectContexts.Select(p => p.TargetFramework)),
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