## htsjdk.samtools.metrics.StringHeader
# CrosscheckFingerprints INPUT=[in/sample.bam, in/NA12892.over.fingerprints.shifted.for.crams.r1.sam] OUTPUT=picard/crosscheck.crosscheck_metrics HAPLOTYPE_MAP=in/Homo_sapiens_assembly19.haplotype_database.subset.shifted.for.crams.txt CROSSCHECK_BY=LIBRARY    REQUIRE_INDEX_FILES=false CROSSCHECK_MODE=CHECK_SAME_SAMPLE LOD_THRESHOLD=0.0 NUM_THREADS=1 CALCULATE_TUMOR_AWARE_RESULTS=true ALLOW_DUPLICATE_READS=false GENOTYPING_ERROR_RATE=0.01 OUTPUT_ERRORS_ONLY=false LOSS_OF_HET_RATE=0.5 EXPECT_ALL_GROUPS_TO_MATCH=false EXIT_CODE_WHEN_MISMATCH=1 EXIT_CODE_WHEN_NO_VALID_CHECKS=1 MAX_EFFECT_OF_EACH_HAPLOTYPE_BLOCK=3.0 TEST_INPUT_READABILITY=true VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false USE_JDK_DEFLATER=false USE_JDK_INFLATER=false
## htsjdk.samtools.metrics.StringHeader
# Started on: Sat Oct 24 21:43:23 HST 2026

## METRICS CLASS	picard.fingerprint.CrosscheckMetric
LEFT_GROUP_VALUE	RIGHT_GROUP_VALUE	RESULT	DATA_TYPE	LOD_SCORE	LOD_SCORE_TUMOR_NORMAL	LOD_SCORE_NORMAL_TUMOR	LEFT_RUN_BARCODE	LEFT_LANE	LEFT_MOLECULAR_BARCODE_SEQUENCE	LEFT_LIBRARY	LEFT_SAMPLE	LEFT_FILE	RIGHT_RUN_BARCODE	RIGHT_LANE	RIGHT_MOLECULAR_BARCODE_SEQUENCE	RIGHT_LIBRARY	RIGHT_SAMPLE	RIGHT_FILE
NA12891::Pond-492101	NA12891::Pond-492101	EXPECTED_MATCH	LIBRARY	1.967969	1.63742	1.63742	NA12891	-1		Pond-492101	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam	NA12891	-1		Pond-492101	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam
NA12891::Pond-492101	NA12891::NormPond-544932	EXPECTED_MATCH	LIBRARY	1.967969	1.63742	1.63742	NA12891	-1		Pond-492101	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam	NA12891	-1		NormPond-544932	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam
NA12891::Pond-492101	NA12892::Pond-492081	EXPECTED_MISMATCH	LIBRARY	-13.028595	-5.560616	-8.580293	NA12891	-1		Pond-492101	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam	<MULTIPLE_VALUES>	-2147483648	<MULTIPLE_VALUES>	Pond-492081	NA12892	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/NA12892.over.fingerprints.shifted.for.crams.r1.sam
NA12891::NormPond-544932	NA12891::Pond-492101	EXPECTED_MATCH	LIBRARY	1.967969	1.63742	1.63742	NA12891	-1		NormPond-544932	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam	NA12891	-1		Pond-492101	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam
NA12891::NormPond-544932	NA12891::NormPond-544932	EXPECTED_MATCH	LIBRARY	1.967969	1.63742	1.63742	NA12891	-1		NormPond-544932	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam	NA12891	-1		NormPond-544932	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam
NA12891::NormPond-544932	NA12892::Pond-492081	EXPECTED_MISMATCH	LIBRARY	-13.028595	-5.560616	-8.580293	NA12891	-1		NormPond-544932	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam	<MULTIPLE_VALUES>	-2147483648	<MULTIPLE_VALUES>	Pond-492081	NA12892	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/NA12892.over.fingerprints.shifted.for.crams.r1.sam
NA12892::Pond-492081	NA12891::Pond-492101	EXPECTED_MISMATCH	LIBRARY	-13.028595	-8.580293	-5.560616	<MULTIPLE_VALUES>	-2147483648	<MULTIPLE_VALUES>	Pond-492081	NA12892	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/NA12892.over.fingerprints.shifted.for.crams.r1.sam	NA12891	-1		Pond-492101	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam
NA12892::Pond-492081	NA12891::NormPond-544932	EXPECTED_MISMATCH	LIBRARY	-13.028595	-8.580293	-5.560616	<MULTIPLE_VALUES>	-2147483648	<MULTIPLE_VALUES>	Pond-492081	NA12892	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/NA12892.over.fingerprints.shifted.for.crams.r1.sam	NA12891	-1		NormPond-544932	NA12891	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/sample.bam
NA12892::Pond-492081	NA12892::Pond-492081	EXPECTED_MATCH	LIBRARY	1.72269	1.552586	1.552586	<MULTIPLE_VALUES>	-2147483648	<MULTIPLE_VALUES>	Pond-492081	NA12892	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/NA12892.over.fingerprints.shifted.for.crams.r1.sam	<MULTIPLE_VALUES>	-2147483648	<MULTIPLE_VALUES>	Pond-492081	NA12892	file:///private/var/folders/wv/2g_5y_g110s6595g4yj9lb0c0000gn/T/tmp.gKWETXZW4n/in/NA12892.over.fingerprints.shifted.for.crams.r1.sam


