| Test |
Duration |
Result |
| testMappingFromBadString[0](null) |
0.001s |
passed |
| testMappingFromBadString[10](X,100,-,10M,60,.,-1.0) |
0.001s |
passed |
| testMappingFromBadString[11](Y,100,-,10H10M,60,30,30;Y,200,10M10H,60,20,.) |
0.001s |
passed |
| testMappingFromBadString[1](chr1) |
0.003s |
passed |
| testMappingFromBadString[2](chr1,100) |
0s |
passed |
| testMappingFromBadString[3](chr1,100,+) |
0s |
passed |
| testMappingFromBadString[4](chr1,100,+,10M) |
0s |
passed |
| testMappingFromBadString[5](chr1,-1,-,10M,60) |
0.004s |
passed |
| testMappingFromBadString[6](chr1,100,blah,10M,60) |
0s |
passed |
| testMappingFromBadString[7](chr1,100,,10M,60) |
0s |
passed |
| testMappingFromBadString[8](X,100,-,blah,60) |
0s |
passed |
| testMappingFromBadString[9](X,100,-,10M,-1) |
0s |
passed |
| testMappingFromFastqRead[0](org.broadinstitute.hellbender.tools.spark.sv.utils.SVFastqUtils$FastqRead@2919aff3, [Ljava.lang.String;@639948a2, [I@416d90f0, [Z@696298ea, [Lhtsjdk.samtools.Cigar;@de0c402, [I@24955144, [I@9d2af36, [I@740ad32e) |
0.002s |
passed |
| testMappingFromFastqRead[1](org.broadinstitute.hellbender.tools.spark.sv.utils.SVFastqUtils$FastqRead@5d6b5d3d, [Ljava.lang.String;@464d5365, [I@38394dc3, [Z@2cacd55e, [Lhtsjdk.samtools.Cigar;@2ba9f743, [I@7535f28, [I@75f65d54, [I@3f3a6091) |
0.001s |
passed |
| testMappingFromFastqRead[2](org.broadinstitute.hellbender.tools.spark.sv.utils.SVFastqUtils$FastqRead@467a2584, [Ljava.lang.String;@121dce2, [I@6df31abf, [Z@5a57cf90, [Lhtsjdk.samtools.Cigar;@4d16975b, [I@425f94d7, [I@378c48c1, [I@53432aef) |
0s |
passed |
| testMappingFromFastqRead[3](org.broadinstitute.hellbender.tools.spark.sv.utils.SVFastqUtils$FastqRead@14d1032a, [Ljava.lang.String;@414e8b31, [I@b90c5a5, [Z@1786150f, [Lhtsjdk.samtools.Cigar;@bd28c86, [I@3ef089ce, [I@3340ce58, [I@14499b52) |
0.001s |
passed |
| testMappingFromGATKRead[0](test chr1:100-199, [Ljava.lang.String;@404dc999, [I@ef85567, [Z@1c2fb9e8, [Lhtsjdk.samtools.Cigar;@ec3944, [I@2e4339c1, [I@62dc1203, [I@35d0749) |
0.001s |
passed |
| testMappingFromGATKRead[1](test chr2:101-150, [Ljava.lang.String;@f08f8a9, [I@5ebf776c, [Z@7fd3fd06, [Lhtsjdk.samtools.Cigar;@54ae1240, [I@1c2b65cc, [I@390a7532, [I@595184d8) |
0s |
passed |
| testMappingFromGATKRead[2](test 10:51-95, [Ljava.lang.String;@3a0baec0, [I@50c2ef56, [Z@560d6d2, [Lhtsjdk.samtools.Cigar;@3514237f, [I@520ee6b3, [I@15f11bfb, [I@16a499d1) |
0.001s |
passed |
| testMappingFromGATKRead[3](test X:1231-1275, [Ljava.lang.String;@84a9f65, [I@70700b8a, [Z@5fafa76d, [Lhtsjdk.samtools.Cigar;@720ffab4, [I@2e62e227, [I@5ebe903a, [I@7c88d04f) |
0s |
passed |
| testMappingFromString[0](chr1,100,+,100M,60,2,35, [Ljava.lang.String;@4895e8f6, [I@62808e9e, [Z@58b03029, [Lhtsjdk.samtools.Cigar;@539dd2d0, [I@3428420d, [I@523ade68, [I@b529d7e) |
0s |
passed |
| testMappingFromString[1](chr2,101,-,50M,60,.,10, [Ljava.lang.String;@40aad17d, [I@44e79e9e, [Z@5bc14211, [Lhtsjdk.samtools.Cigar;@4b99648a, [I@5d2e65bd, [I@254513e8, [I@74450c9b) |
0s |
passed |
| testMappingFromString[2](10,51,+,10S45M,30;20,1213,-,10M45H,.,10,30, [Ljava.lang.String;@5ad50b02, [I@570299e3, [Z@bff764c, [Lhtsjdk.samtools.Cigar;@3beaa16d, [I@49153009, [I@a1b7549, [I@7aa63f50) |
0.001s |
passed |
| testMappingFromString[3](X,1231,-,10S45M31S,20,.;Y,3112,+,10M76H,255;MT,1,-,55H31M,60,0,112, [Ljava.lang.String;@745cf754, [I@25bc65ab, [Z@6eab92f3, [Lhtsjdk.samtools.Cigar;@321b7b9e, [I@21eedcde, [I@67396475, [I@55b74e6b) |
0s |
passed |
| testMappingToStringRead[0](test chr1:100-199, [Ljava.lang.String;@d85a651, [I@64b95cd7, [Z@2c367518, [Lhtsjdk.samtools.Cigar;@3658b0ce, [I@164f2f7a, [I@383e8680, [I@27bfba2a) |
0s |
passed |
| testMappingToStringRead[1](test chr2:101-150, [Ljava.lang.String;@3b4971c4, [I@770feaab, [Z@2d3b708a, [Lhtsjdk.samtools.Cigar;@6cee59d6, [I@1cd9c2de, [I@140b395c, [I@62c2a477) |
0s |
passed |
| testMappingToStringRead[2](test 10:51-95, [Ljava.lang.String;@2e619363, [I@63ed8e2a, [Z@147b7f3c, [Lhtsjdk.samtools.Cigar;@b106842, [I@29c808c8, [I@265b5f05, [I@6916566d) |
0.001s |
passed |
| testMappingToStringRead[3](test X:1231-1275, [Ljava.lang.String;@82bbbdc, [I@74f47eab, [Z@2f8afb66, [Lhtsjdk.samtools.Cigar;@2d4fe03b, [I@786f4b15, [I@2f397395, [I@5710fcdf) |
0s |
passed |
| testMappingToString[0](chr1,100,+,100M,60,2,35, [Ljava.lang.String;@67573db5, [I@64d1bf9, [Z@2219ca9f, [Lhtsjdk.samtools.Cigar;@47d57aae, [I@19315d74, [I@774d1f78, [I@1b6c7e3c) |
0.001s |
passed |
| testMappingToString[1](chr2,101,-,50M,60,.,10, [Ljava.lang.String;@64c94e8c, [I@7be03bb2, [Z@385376c, [Lhtsjdk.samtools.Cigar;@774e5726, [I@595dda6d, [I@231a475f, [I@98e2a07) |
0s |
passed |
| testMappingToString[2](10,51,+,10S45M,30;20,1213,-,10M45H,.,10,30, [Ljava.lang.String;@3bc59637, [I@4a141eaf, [Z@3232dbf8, [Lhtsjdk.samtools.Cigar;@5b7c79da, [I@4c9f28ac, [I@2694b6f6, [I@25d44c7) |
0s |
passed |
| testMappingToString[3](X,1231,-,10S45M31S,20,.;Y,3112,+,10M76H,255;MT,1,-,55H31M,60,0,112, [Ljava.lang.String;@fb8da51, [I@c18ee56, [Z@648be86e, [Lhtsjdk.samtools.Cigar;@6423fba7, [I@2d00df20, [I@66a1fe88, [I@5dd2a2aa) |
0.001s |
passed |
| testNonPrimaryAlignmentReadWithSA |
0s |
passed |
| testNonPrimaryAlignmentReadWithoutSA |
0s |
passed |
| testNonPrimaryAlignmentWithSAWhereFirstElementHasHardClips |
0s |
passed |
| testPrimaryAlignmentWithHardClips |
0.001s |
passed |
| testSimpleRoundTrip |
0s |
passed |
| testUnmappedFromFastqRead |
0s |
passed |
| testUnmappedFromGATKRead |
0s |
passed |
| testUnmappedFromString |
0s |
passed |