Test added

src/test/java/org/broadinstitute/hellbender/utils/read/FlowBasedReadUtilsUnitTest.java

@@ -0,0 +1,32 @@
+package org.broadinstitute.hellbender.utils.read;
+import htsjdk.samtools.SAMFileHeader;
+import htsjdk.samtools.SAMReadGroupRecord;
+import htsjdk.samtools.SamReader;
+import htsjdk.samtools.SamReaderFactory;
+import org.broadinstitute.hellbender.GATKBaseTest;
+import org.testng.annotations.Test;
+
+import java.io.File;
+import java.nio.file.FileSystems;
+import java.nio.file.Path;
+
+
+public class FlowBasedReadUtilsUnitTest extends GATKBaseTest{
+    @Test
+    void testReadGroupParsing() throws Exception{
+        final String    testResourceDir = publicTestDir + "org/broadinstitute/hellbender/utils/read/flow/reads/";
+        final String inputDir = testResourceDir + "/input/";
+
+        final Path inputFile = FileSystems.getDefault().getPath(inputDir, "sample_mc.bam");
+        final SamReader reader = SamReaderFactory.makeDefault().open(new File(inputFile.toString()));
+        SAMFileHeader header = reader.getFileHeader();
+        SAMReadGroupRecord rg1 = header.getReadGroup("UGAv3-72");
+        FlowBasedReadUtils.ReadGroupInfo frg1 = new FlowBasedReadUtils.ReadGroupInfo(rg1);
+        assert(frg1.maxClass==12);
+        assert(frg1.flowOrder.startsWith("TGCA"));
+        SAMReadGroupRecord rg2 = header.getReadGroup("UGAv3-73");
+        FlowBasedReadUtils.ReadGroupInfo frg2 = new FlowBasedReadUtils.ReadGroupInfo(rg2);
+        assert(frg2.maxClass==20);
+        assert(frg2.flowOrder.startsWith("TGCA"));
+    }
+}