7df6e18265341f87a69fba808aa1f92f8ebca841 markd Wed Apr 15 13:39:42 2026 -0700 move copy of htslib diff --git src/htslib/test/test-vcf-api.out src/htslib/test/test-vcf-api.out deleted file mode 100644 index d3bb73e64a9..00000000000 --- src/htslib/test/test-vcf-api.out +++ /dev/null @@ -1,28 +0,0 @@ -##fileformat=VCFv4.2 -##FILTER=<ID=PASS,Description="All filters passed"> -##fileDate=20090805 -##unused=<XX=AA,Description="Unused generic"> -##source=myImputationProgramV3.1 -##reference=file:///seq/references/1000GenomesPilot-NCBI36.fasta -##contig=<ID=20,length=62435964,assembly=B36,md5=f126cdf8a6e0c7f379d618ff66beb2da,species="Homo sapiens",taxonomy=x> -##phasing=partial -##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=AA,Number=1,Type=String,Description="Ancestral Allele"> -##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129"> -##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership"> -##FILTER=<ID=q10,Description="Quality below 10"> -##FILTER=<ID=s50,Description="Less than 50% of samples have data"> -##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"> -##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality"> -##FORMAT=<ID=TS,Number=1,Type=String,Description="Test String"> -#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA00001 NA00002 NA00003 -20 14370 rs6054257 G A 29 PASS NS=3;DP=14;AF=0.5;DB;H2 GT:GQ:DP:HQ:TS 0|0:48:1:51,51:String1 1|0:48:8:51,51:SomeOtherString2 1/1:43:5:.,.:YetAnotherString3 -20 14370 . G A 29 PASS NS=3;DP=14;AF=0.5;DB;H2 GT:DP:HQ:TS 0|0:1:51,51:String1 1|0:8:51,51:SomeOtherString2 1/1:5:.,.:YetAnotherString3 -20 14370 . G A 29 PASS NS=3;DP=99;AF=0.5;DB;H2 GT:DP:HQ:TS 0|0:9:51,51:String1 1|0:9:51,51:SomeOtherString2 1/1:9:.,.:YetAnotherString3 -20 1110696 . A G,T 67 . NS=2;DP=10;AF=0.333,.;AA=T;DB GT 2 1 ./. -20 1110696 . A G,T 67 . NS=2;DP=10;AF=0.333,.;AA=T;DB GT 2 1 ./. -20 1110696 . G A 67 . NS=2;DP=99;AF=0.333,.;AA=T;DB GT:DP 2:9 1:9 ./.:9