Test output file needed

biopet-extensions/src/test/resources/nl/lumc/sasc/biopet/extensions/clever/expectedresult.clever.vcf

+##fileformat=VCFv4.2
+##fileDate=20150730
+##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
+##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
+##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency">
+##INFO=<ID=IMPRECISE,Number=0,Type=Flag,Description="Imprecise structural variation">
+##INFO=<ID=NOVEL,Number=0,Type=Flag,Description="Indicates a novel structural variation">
+##INFO=<ID=SVEND,Number=1,Type=Integer,Description="End position of the variant described in this record">
+##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the variant described in this record">
+##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of structural variant">
+##INFO=<ID=SVLEN,Number=.,Type=Integer,Description="Difference in length between REF and ALT alleles">
+##INFO=<ID=CIPOS,Number=2,Type=Integer,Description="Confidence interval around POS for imprecise variants">
+##INFO=<ID=CIEND,Number=2,Type=Integer,Description="Confidence interval around END for imprecise variants">
+##INFO=<ID=HOMLEN,Number=.,Type=Integer,Description="Length of base pair identical micro-homology at event breakpoints">
+##INFO=<ID=HOMSEQ,Number=.,Type=String,Description="Sequence of base pair identical micro-homology at event breakpoints">
+##INFO=<ID=BKPTID,Number=.,Type=String,Description="ID of the assembled alternate allele in the assembly file">
+##INFO=<ID=MEINFO,Number=4,Type=String,Description="Mobile element info of the form NAME,START,END,POLARITY">
+##INFO=<ID=METRANS,Number=4,Type=String,Description="Mobile element transduction info of the form CHR,START,END,POLARITY">
+##INFO=<ID=DGVID,Number=1,Type=String,Description="ID of this element in Database of Genomic Variation">
+##INFO=<ID=DBVARID,Number=1,Type=String,Description="ID of this element in DBVAR">
+##INFO=<ID=DBRIPID,Number=1,Type=String,Description="ID of this element in DBRIP">
+##INFO=<ID=MATEID,Number=.,Type=String,Description="ID of mate breakends">
+##INFO=<ID=PARID,Number=1,Type=String,Description="ID of partner breakend">
+##INFO=<ID=EVENT,Number=1,Type=String,Description="ID of event associated to breakend">
+##INFO=<ID=BPWINDOW,Number=2,Type=Integer,Description="Window of breakpoints">
+##INFO=<ID=CILEN,Number=2,Type=Integer,Description="Confidence interval around the inserted material between breakends">
+##INFO=<ID=DP,Number=1,Type=Integer,Description="Read Depth of segment containing breakend">
+##INFO=<ID=DPADJ,Number=.,Type=Integer,Description="Read Depth of adjacency">
+##INFO=<ID=CN,Number=1,Type=Integer,Description="Copy number of segment containing breakend">
+##INFO=<ID=CNADJ,Number=.,Type=Integer,Description="Copy number of adjacency">
+##INFO=<ID=CICN,Number=2,Type=Integer,Description="Confidence interval around copy number for the segment">
+##INFO=<ID=CICNADJ,Number=.,Type=Integer,Description="Confidence interval around copy number for the adjacency">
+##FORMAT=<ID=CN,Number=1,Type=Integer,Description="Copy number genotype for imprecise events">
+##FORMAT=<ID=CNQ,Number=1,Type=Float,Description="Copy number genotype quality for imprecise events">
+##FORMAT=<ID=CNL,Number=.,Type=Float,Description="Copy number genotype likelihood for imprecise events">
+##FORMAT=<ID=NQ,Number=1,Type=Integer,Description="Phred style probability score that the variant is novel">
+##FORMAT=<ID=HAP,Number=1,Type=Integer,Description="Unique haplotype identifier">
+##FORMAT=<ID=AHAP,Number=1,Type=Integer,Description="Unique identifier of ancestral haplotype">
+##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
+##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
+##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
+#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	testsample
+chrM	352	L170961	N	<DEL>	.	PASS	BPWINDOW=353,16175;CILEN=15817,15829;IMPRECISE;SVLEN=-15823;SVTYPE=DEL	GT:DP	1/.:76