Test |
Duration |
Result |
testMappingFromBadString[0](null) |
0s |
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,.) |
0s |
passed |
testMappingFromBadString[1](chr1) |
0s |
passed |
testMappingFromBadString[2](chr1,100) |
0.001s |
passed |
testMappingFromBadString[3](chr1,100,+) |
0.001s |
passed |
testMappingFromBadString[4](chr1,100,+,10M) |
0s |
passed |
testMappingFromBadString[5](chr1,-1,-,10M,60) |
0.003s |
passed |
testMappingFromBadString[6](chr1,100,blah,10M,60) |
0s |
passed |
testMappingFromBadString[7](chr1,100,,10M,60) |
0.001s |
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$FastqRead@5a6482a9, [Ljava.lang.String;@7f9ab969, [I@12f8b1d8, [Z@746cd757, [Lhtsjdk.samtools.Cigar;@ae372b9, [I@2098d37d, [I@77b9d0c7, [I@65fd6708) |
0.011s |
passed |
testMappingFromFastqRead[1](org.broadinstitute.hellbender.tools.spark.sv.utils.SVFastqUtils$FastqRead@60e21209, [Ljava.lang.String;@630d1b2f, [I@746b18fd, [Z@7a2e0858, [Lhtsjdk.samtools.Cigar;@aac3f4e, [I@1f38957, [I@2df3c564, [I@2715644a) |
0s |
passed |
testMappingFromFastqRead[2](org.broadinstitute.hellbender.tools.spark.sv.utils.SVFastqUtils$FastqRead@518cf84a, [Ljava.lang.String;@62e7dffa, [I@6edcd0d8, [Z@6136998b, [Lhtsjdk.samtools.Cigar;@57ce634f, [I@b8a7e43, [I@35835fa, [I@56f71edb) |
0s |
passed |
testMappingFromFastqRead[3](org.broadinstitute.hellbender.tools.spark.sv.utils.SVFastqUtils$FastqRead@2a27cb34, [Ljava.lang.String;@6892cc6f, [I@6fd1660, [Z@4a6c18ad, [Lhtsjdk.samtools.Cigar;@5e8604bf, [I@20095ab4, [I@4e2916c3, [I@64aad6db) |
0s |
passed |
testMappingFromGATKRead[0](test chr1:100-199, [Ljava.lang.String;@352e787a, [I@159a48a6, [Z@15bc339, [Lhtsjdk.samtools.Cigar;@7e75bf2d, [I@385ef531, [I@7fc645e4, [I@205b132e) |
0.004s |
passed |
testMappingFromGATKRead[1](test chr2:101-150, [Ljava.lang.String;@2301b75, [I@3104f7bd, [Z@2f5c1332, [Lhtsjdk.samtools.Cigar;@7ec25216, [I@7cab1508, [I@6a84bc3f, [I@258ee7de) |
0.002s |
passed |
testMappingFromGATKRead[2](test 10:51-95, [Ljava.lang.String;@6d171ce0, [I@22bd2039, [Z@705f83a7, [Lhtsjdk.samtools.Cigar;@3bb8aabc, [I@6e1d4137, [I@256a1825, [I@29a4f594) |
0.002s |
passed |
testMappingFromGATKRead[3](test X:1231-1275, [Ljava.lang.String;@287f7811, [I@451f87af, [Z@2b556bb2, [Lhtsjdk.samtools.Cigar;@44cb460e, [I@17271176, [I@2e3cdec2, [I@2e34384c) |
0s |
passed |
testMappingFromString[0](chr1,100,+,100M,60,2,35, [Ljava.lang.String;@57d0fc89, [I@58294867, [Z@67c277a0, [Lhtsjdk.samtools.Cigar;@6fc3e1a4, [I@3fa76c61, [I@2d5f7182, [I@59546cfe) |
0s |
passed |
testMappingFromString[1](chr2,101,-,50M,60,.,10, [Ljava.lang.String;@2d2acd89, [I@7baf6acf, [Z@1e6dad8, [Lhtsjdk.samtools.Cigar;@7b3315a5, [I@8ed9cf, [I@f72203, [I@377008df) |
0.001s |
passed |
testMappingFromString[2](10,51,+,10S45M,30;20,1213,-,10M45H,.,10,30, [Ljava.lang.String;@22bb5646, [I@1be59f28, [Z@2ce45a7b, [Lhtsjdk.samtools.Cigar;@153d4abb, [I@6d4c273c, [I@5a67e962, [I@545e57d7) |
0s |
passed |
testMappingFromString[3](X,1231,-,10S45M31S,20,.;Y,3112,+,10M76H,255;MT,1,-,55H31M,60,0,112, [Ljava.lang.String;@27b000f7, [I@42f9c19a, [Z@64bfd6fd, [Lhtsjdk.samtools.Cigar;@2ab2710, [I@253b380a, [I@29c2c826, [I@3350ebdd) |
0.001s |
passed |
testMappingToStringRead[0](test chr1:100-199, [Ljava.lang.String;@5589b8ed, [I@44c639d4, [Z@6197fa5f, [Lhtsjdk.samtools.Cigar;@35dba0b4, [I@2d8d2832, [I@58f0acce, [I@66bf08d) |
0s |
passed |
testMappingToStringRead[1](test chr2:101-150, [Ljava.lang.String;@2ad557a5, [I@771e08ed, [Z@2ea8611b, [Lhtsjdk.samtools.Cigar;@298550b4, [I@29ed425e, [I@2eb37eee, [I@43fe629a) |
0s |
passed |
testMappingToStringRead[2](test 10:51-95, [Ljava.lang.String;@341df52, [I@36b085da, [Z@66adb24, [Lhtsjdk.samtools.Cigar;@2aeef1ca, [I@27d8008a, [I@15f4dffe, [I@4517959f) |
0.001s |
passed |
testMappingToStringRead[3](test X:1231-1275, [Ljava.lang.String;@7f91d389, [I@4c29f8aa, [Z@356b37dd, [Lhtsjdk.samtools.Cigar;@7fe915ca, [I@e158c25, [I@d7ad9e5, [I@61c3d248) |
0s |
passed |
testMappingToString[0](chr1,100,+,100M,60,2,35, [Ljava.lang.String;@331bd9f2, [I@3b1c0bd2, [Z@69668de7, [Lhtsjdk.samtools.Cigar;@5e4332d1, [I@337ab4a2, [I@68e36b84, [I@3537caca) |
0s |
passed |
testMappingToString[1](chr2,101,-,50M,60,.,10, [Ljava.lang.String;@141cc645, [I@67503009, [Z@6cbad7b3, [Lhtsjdk.samtools.Cigar;@33587cb8, [I@4184aa78, [I@27320a39, [I@1d8f4623) |
0s |
passed |
testMappingToString[2](10,51,+,10S45M,30;20,1213,-,10M45H,.,10,30, [Ljava.lang.String;@9f1f42c, [I@3e2544e9, [Z@597ca350, [Lhtsjdk.samtools.Cigar;@2665ba0d, [I@20337a79, [I@3425709a, [I@87f336d) |
0s |
passed |
testMappingToString[3](X,1231,-,10S45M31S,20,.;Y,3112,+,10M76H,255;MT,1,-,55H31M,60,0,112, [Ljava.lang.String;@389a070e, [I@27241127, [Z@5631baf5, [Lhtsjdk.samtools.Cigar;@5f546133, [I@379ebfa0, [I@30b43d5d, [I@6b89dfac) |
0.001s |
passed |
testNonPrimaryAlignmentReadWithSA |
0.001s |
passed |
testNonPrimaryAlignmentReadWithoutSA |
0.001s |
passed |
testNonPrimaryAlignmentWithSAWhereFirstElementHasHardClips |
0.002s |
passed |
testPrimaryAlignmentWithHardClips |
0s |
passed |
testSimpleRoundTrip |
0.001s |
passed |
testUnmappedFromFastqRead |
0.001s |
passed |
testUnmappedFromGATKRead |
0s |
passed |
testUnmappedFromString |
0s |
passed |