| Test |
Duration |
Result |
| collapseAlgorithmsTest[0]([[depth]], [depth]) |
0.001s |
passed |
| collapseAlgorithmsTest[10]([[depth, pesr], [depth, pesr]], [depth, pesr]) |
0s |
passed |
| collapseAlgorithmsTest[1]([[depth], [depth]], [depth]) |
0s |
passed |
| collapseAlgorithmsTest[2]([[pesr]], [pesr]) |
0s |
passed |
| collapseAlgorithmsTest[3]([[pesrA, pesrB]], [pesrA, pesrB]) |
0s |
passed |
| collapseAlgorithmsTest[4]([[pesrB, pesrA]], [pesrA, pesrB]) |
0s |
passed |
| collapseAlgorithmsTest[5]([[pesrA], [pesrB]], [pesrA, pesrB]) |
0s |
passed |
| collapseAlgorithmsTest[6]([[pesrB], [pesrA]], [pesrA, pesrB]) |
0s |
passed |
| collapseAlgorithmsTest[7]([[pesrA, pesrB], [pesrB]], [pesrA, pesrB]) |
0s |
passed |
| collapseAlgorithmsTest[8]([[pesrB, pesrA], [pesrA]], [pesrA, pesrB]) |
0s |
passed |
| collapseAlgorithmsTest[9]([[pesr], [depth]], [depth, pesr]) |
0s |
passed |
| collapseAltAllelesTest[0]([[]], DEL, [Ljava.lang.Integer;@6f0969db, [Ljava.lang.Integer;@38eb2140, [], []) |
0.001s |
passed |
| collapseAltAllelesTest[10]([[<INS>], [<INS:MEI>]], INS, [Ljava.lang.Integer;@2ca6937, [Ljava.lang.Integer;@42908ad5, [<INS>], [<INS:MEI>]) |
0.001s |
passed |
| collapseAltAllelesTest[11]([[<INS:MEI>], [<INS:MEI:SVA>]], INS, [Ljava.lang.Integer;@290964bd, [Ljava.lang.Integer;@3411e0d7, [<INS:MEI>], [<INS:MEI:SVA>]) |
0s |
passed |
| collapseAltAllelesTest[12]([[<INS:MEI:LINE>], [<INS:MEI:SVA>]], INS, [Ljava.lang.Integer;@75044df3, [Ljava.lang.Integer;@17caf362, [<INS:MEI>], [<INS:MEI>]) |
0s |
passed |
| collapseAltAllelesTest[1]([[N*]], DEL, [Ljava.lang.Integer;@2132629e, [Ljava.lang.Integer;@5ec80bbd, [], []) |
0s |
passed |
| collapseAltAllelesTest[2]([[A*]], DEL, [Ljava.lang.Integer;@65c75870, [Ljava.lang.Integer;@5753e0c4, [], []) |
0s |
passed |
| collapseAltAllelesTest[3]([[.]], DEL, [Ljava.lang.Integer;@43ee585f, [Ljava.lang.Integer;@1cb58c8a, [], []) |
0s |
passed |
| collapseAltAllelesTest[4]([[A]], INS, [Ljava.lang.Integer;@591e27f1, [Ljava.lang.Integer;@6803b02d, [A], [A]) |
0s |
passed |
| collapseAltAllelesTest[5]([[<DEL>]], DEL, [Ljava.lang.Integer;@4c0e09b5, [Ljava.lang.Integer;@64078e6a, [<DEL>], [<DEL>]) |
0.001s |
passed |
| collapseAltAllelesTest[6]([[N*], [<DEL>]], DEL, [Ljava.lang.Integer;@5c5cd332, [Ljava.lang.Integer;@60232aad, [<DEL>], [<DEL>]) |
0s |
passed |
| collapseAltAllelesTest[7]([[N*, N*], [N*, <DEL>]], DEL, [Ljava.lang.Integer;@2fa81b23, [Ljava.lang.Integer;@155788a7, [<DEL>], [<DEL>]) |
0s |
passed |
| collapseAltAllelesTest[8]([[N*, <DUP>], [N*, <DEL>]], CNV, [Ljava.lang.Integer;@28f33810, [Ljava.lang.Integer;@476d5f2e, [<DEL>, <DUP>], [<DEL>, <DUP>]) |
0.001s |
passed |
| collapseAltAllelesTest[9]([[<INS:MEI>], [<INS:MEI>]], INS, [Ljava.lang.Integer;@4750e942, [Ljava.lang.Integer;@76527a00, [<INS:MEI>], [<INS:MEI>]) |
0s |
passed |
| collapseAttributesTest[0]([Ljava.lang.String;@2e78213c, [Ljava.lang.Object;@79c48ad5, [Ljava.lang.String;@39d5376c, [Ljava.lang.Object;@20dab85c, [Ljava.lang.String;@4fc41cba, [Ljava.lang.Object;@120bb5b5, OR) |
0s |
passed |
| collapseAttributesTest[10]([Ljava.lang.String;@36821a1b, [Ljava.lang.Object;@34adce96, [Ljava.lang.String;@5a2e4e77, [Ljava.lang.Object;@794c22cd, [Ljava.lang.String;@5fb8ad3d, [Ljava.lang.Object;@5bb0122, OR) |
0s |
passed |
| collapseAttributesTest[11]([Ljava.lang.String;@358caf3a, [Ljava.lang.Object;@2fc72df3, [Ljava.lang.String;@72288b38, [Ljava.lang.Object;@2aee0173, [Ljava.lang.String;@7acb8e6b, [Ljava.lang.Object;@6c758c74, OR) |
0s |
passed |
| collapseAttributesTest[12]([Ljava.lang.String;@8dcc25, [Ljava.lang.Object;@2693b289, [Ljava.lang.String;@66c58c03, [Ljava.lang.Object;@29e40db1, [Ljava.lang.String;@47e6004c, [Ljava.lang.Object;@7c5ae5c3, AND) |
0s |
passed |
| collapseAttributesTest[13]([Ljava.lang.String;@482652f7, [Ljava.lang.Object;@63f9c2cd, [Ljava.lang.String;@7b0a864e, [Ljava.lang.Object;@6a271c2b, [Ljava.lang.String;@106c4a72, [Ljava.lang.Object;@3d2e1d18, AND) |
0s |
passed |
| collapseAttributesTest[14]([Ljava.lang.String;@402d443d, [Ljava.lang.Object;@32e0b990, [Ljava.lang.String;@7f6ba409, [Ljava.lang.Object;@232e4e1d, [Ljava.lang.String;@988eae9, [Ljava.lang.Object;@3e93ee71, AND) |
0s |
passed |
| collapseAttributesTest[15]([Ljava.lang.String;@4df5b562, [Ljava.lang.Object;@3e4d197, [Ljava.lang.String;@222557fc, [Ljava.lang.Object;@6c633590, [Ljava.lang.String;@c5dc3db, [Ljava.lang.Object;@2910c3ae, AND) |
0s |
passed |
| collapseAttributesTest[16]([Ljava.lang.String;@193b6f5b, [Ljava.lang.Object;@2fd16368, [Ljava.lang.String;@3fd7f545, [Ljava.lang.Object;@470a2845, [Ljava.lang.String;@589c648, [Ljava.lang.Object;@21e72fb2, AND) |
0s |
passed |
| collapseAttributesTest[17]([Ljava.lang.String;@3744c760, [Ljava.lang.Object;@7cb4fc46, [Ljava.lang.String;@64b6d6dd, [Ljava.lang.Object;@1181a376, [Ljava.lang.String;@ef09e1, [Ljava.lang.Object;@5b628376, AND) |
0s |
passed |
| collapseAttributesTest[18]([Ljava.lang.String;@15363eba, [Ljava.lang.Object;@6d6e8dfc, [Ljava.lang.String;@2258ca14, [Ljava.lang.Object;@2e5337d8, [Ljava.lang.String;@ab40f46, [Ljava.lang.Object;@13ac7281, AND) |
0.001s |
passed |
| collapseAttributesTest[19]([Ljava.lang.String;@409a164d, [Ljava.lang.Object;@6a7eef27, [Ljava.lang.String;@1ab6a093, [Ljava.lang.Object;@6d95b51d, [Ljava.lang.String;@7d2dfe9c, [Ljava.lang.Object;@60b721c9, ALWAYS_FALSE) |
0s |
passed |
| collapseAttributesTest[1]([Ljava.lang.String;@7798de95, [Ljava.lang.Object;@18563d10, [Ljava.lang.String;@573f95b2, [Ljava.lang.Object;@79927a7c, [Ljava.lang.String;@484f7fad, [Ljava.lang.Object;@61d87509, OR) |
0s |
passed |
| collapseAttributesTest[2]([Ljava.lang.String;@20ca2c3f, [Ljava.lang.Object;@134b9d9c, [Ljava.lang.String;@3199c2c1, [Ljava.lang.Object;@74c997b1, [Ljava.lang.String;@593f6c3, [Ljava.lang.Object;@4afb2c90, OR) |
0s |
passed |
| collapseAttributesTest[3]([Ljava.lang.String;@d471ddb, [Ljava.lang.Object;@17f8c75e, [Ljava.lang.String;@474f69d, [Ljava.lang.Object;@6a17ab87, [Ljava.lang.String;@5f0bcadb, [Ljava.lang.Object;@e182453, OR) |
0s |
passed |
| collapseAttributesTest[4]([Ljava.lang.String;@7ae736a8, [Ljava.lang.Object;@7b3b763d, [Ljava.lang.String;@34ceefb5, [Ljava.lang.Object;@461f295c, [Ljava.lang.String;@50e0541, [Ljava.lang.Object;@25a41143, OR) |
0.001s |
passed |
| collapseAttributesTest[5]([Ljava.lang.String;@59be715a, [Ljava.lang.Object;@2cef4321, [Ljava.lang.String;@29c471f6, [Ljava.lang.Object;@6859f102, [Ljava.lang.String;@424769f2, [Ljava.lang.Object;@1467dcd0, OR) |
0s |
passed |
| collapseAttributesTest[6]([Ljava.lang.String;@39d0775c, [Ljava.lang.Object;@40a1916d, [Ljava.lang.String;@6a8a54f5, [Ljava.lang.Object;@4623c0d3, [Ljava.lang.String;@7c7335dc, [Ljava.lang.Object;@3095e9c6, OR) |
0s |
passed |
| collapseAttributesTest[7]([Ljava.lang.String;@50fd4246, [Ljava.lang.Object;@35c55050, [Ljava.lang.String;@2a0154f7, [Ljava.lang.Object;@237e61ac, [Ljava.lang.String;@19abe8f7, [Ljava.lang.Object;@6f36c42, OR) |
0s |
passed |
| collapseAttributesTest[8]([Ljava.lang.String;@765650e4, [Ljava.lang.Object;@307cf289, [Ljava.lang.String;@2df019b8, [Ljava.lang.Object;@223ed38f, [Ljava.lang.String;@66ab765c, [Ljava.lang.Object;@319428ba, OR) |
0s |
passed |
| collapseAttributesTest[9]([Ljava.lang.String;@4872d04d, [Ljava.lang.Object;@75564689, [Ljava.lang.String;@65977161, [Ljava.lang.Object;@5f7e2ca8, [Ljava.lang.String;@1d07fb2, [Ljava.lang.Object;@46f5030f, OR) |
0s |
passed |
| collapseIntervalRepresentativeByCoordinatesTest |
0.001s |
passed |
| collapseIntervalRepresentativeTest[0](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@1243ad9a, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@30c085f3, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[10](-99.0, -99.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@6b351a54, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@43edd4e0, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[11](null, 0.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@3dfef314, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7edab945, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[12](0.0, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@6bbd645, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@4c97e3d5, true) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[13](null, 0.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5d6e77a4, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5bf9bb2, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[14](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7231c423, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5c4c4e96, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[15](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7902b006, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5ee63d9, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[16](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@3d2ec8b2, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@43905ade, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[17](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5f51f320, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@14f1db20, true) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[18](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@1c298769, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@4cb1af3f, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[19](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@32bff23d, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@627d29cc, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[1](0.0, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@2004f99, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@d200d3e, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[20](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@6f914212, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@22726bc7, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[2](null, 0.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@20c5b5f8, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@20395afe, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[3](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@4b1339bf, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@46f43f50, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[4](-99.0, -99.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@743a9292, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@6dbfd081, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[5](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@47cf41d7, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@67c1f5be, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[6](-99.0, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5af7a7, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@685e8e17, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[7](null, -99.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5f3705e7, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@8872669, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[8](-10.0, -9.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@1e23e1ef, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@79dcd7f1, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[9](-10.0, -9.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@75abbb61, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@740610a2, true) |
0s |
passed |
| collapseIntervalTest[0]([Ljava.lang.String;@2fef413c, [I@4a0b1701, [I@7b9661d4, DEL, [I@20de9df, [I@57bebe03, [I@451f08ea, [I@dcf495c) |
0.010s |
passed |
| collapseIntervalTest[1]([Ljava.lang.String;@249f95a2, [I@5f36ba0f, [I@70c741be, DEL, [I@611d867, [I@5efb7f82, [I@34775090, [I@7e772d11) |
0.001s |
passed |
| collapseIntervalTest[2]([Ljava.lang.String;@2e5d40a4, [I@56aacc7b, [I@112d94d, DEL, [I@6e832c9, [I@42f40ad0, [I@423ddfe1, [I@5572be5a) |
0.001s |
passed |
| collapseIntervalTest[3]([Ljava.lang.String;@700b9a54, [I@5c658163, [I@1ca574db, DUP, [I@5323b690, [I@7fd65f9a, [I@f48a79a, [I@38fc1904) |
0s |
passed |
| collapseIntervalTest[4]([Ljava.lang.String;@3bc2146c, [I@717c00f9, [I@299003eb, DUP, [I@72139933, [I@59d99269, [I@48332a63, [I@6195e7d5) |
0s |
passed |
| collapseIntervalTest[5]([Ljava.lang.String;@1afea182, [I@4bcff08c, [I@52a1d6f, BND, [I@38bb297, [I@6c96e1d5, [I@58e9375b, [I@d7d984c) |
0s |
passed |
| collapseIntervalTest[6]([Ljava.lang.String;@8ff4795, [I@19bdfa3e, [I@78e3bebd, BND, [I@4f0b02a3, [I@3d3a3738, [I@4ba056ab, [I@2e530f34) |
0s |
passed |
| collapseIntervalTest[7]([Ljava.lang.String;@55b56db3, [I@1c697ca0, [I@2af5eab6, INS, [I@43347199, [I@3d1254b9, [I@6a49b3c7, [I@6f6c4462) |
0.004s |
passed |
| collapseIntervalTest[8]([Ljava.lang.String;@20ac726c, [I@75c2a35, [I@a9e31e8, INS, [I@27c2f134, [I@64bed8b2, [I@2555b92, [I@793f2b41) |
0s |
passed |
| collapseInvalidAltAllelesTest |
0s |
passed |
| collapseLengthTest[0](org.broadinstitute.hellbender.tools.sv.SVCallRecord@730c4dfd, INS, 100) |
0s |
passed |
| collapseLengthTest[1](org.broadinstitute.hellbender.tools.sv.SVCallRecord@1bb509a6, INS, null) |
0s |
passed |
| collapseLengthTest[2](org.broadinstitute.hellbender.tools.sv.SVCallRecord@397fced4, BND, null) |
0s |
passed |
| collapseLengthTest[3](org.broadinstitute.hellbender.tools.sv.SVCallRecord@31c9bb2f, CTX, null) |
0s |
passed |
| collapseLengthTest[4](org.broadinstitute.hellbender.tools.sv.SVCallRecord@36a65069, CPX, 50) |
0.001s |
passed |
| collapseLengthTest[5](org.broadinstitute.hellbender.tools.sv.SVCallRecord@5b8e2ea7, DEL, 100) |
0s |
passed |
| collapseLengthTest[6](org.broadinstitute.hellbender.tools.sv.SVCallRecord@6fb87b73, DUP, 200) |
0s |
passed |
| collapseLengthTest[7](org.broadinstitute.hellbender.tools.sv.SVCallRecord@75f67ea7, CNV, 300) |
0s |
passed |
| collapseSampleGenotypesTest[0](sample, [[]], [{ECN=0}], N*, [sample NA {ECN=0}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[10](sample, [[N*, N*], [N*, <INS>]], [{ECN=2}, {ECN=2}], N*, [sample N*/<INS> {ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[11](sample, [[N*, N*], [N*, <INS>]], [{ECN=2, GQ=30}, {ECN=2, GQ=20}], N*, [sample N*/<INS> {ECN=2, GQ=20}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[12](sample, [[<INS>, <INS>], [N*, <INS>]], [{ECN=2}, {ECN=2}], N*, [sample N*/<INS> {ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[13](sample, [[<INS>, <INS>], [N*, <INS>]], [{ECN=2, GQ=30}, {ECN=2, GQ=30}], N*, [sample N*/<INS> {ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[14](sample, [[<INS>, <INS>], [N*, <INS>]], [{ECN=2, GQ=40}, {ECN=2, GQ=30}], N*, [sample <INS>/<INS> {ECN=2, GQ=40}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[15](sample, [[<INS>, <INS>], [N*, <INS>], [N*, N*]], [{ECN=2, GQ=30}, {ECN=2, GQ=30}, {ECN=2, GQ=30}], N*, [sample N*/<INS> {ECN=2, GQ=30}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[16](sample, [[<INS>, <INS>], [N*, <INS>], [N*, N*], [., .]], [{ECN=2, GQ=30}, {ECN=2, GQ=40}, {ECN=2, GQ=50}, {ECN=2, GQ=50}], N*, [sample N*/<INS> {ECN=2, GQ=40}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[17](sample, [[N*, N*, <INS>], [N*, N*, N*]], [{ECN=3}, {ECN=3}], N*, [sample N*/N*/<INS> {ECN=3}]) |
0s |
passed |
| collapseSampleGenotypesTest[18](sample, [[N*, <INS>, <INS>], [N*, N*, <INS>], [N*, N*, N*]], [{ECN=3}, {ECN=3}, {ECN=3}], N*, [sample N*/N*/<INS> {ECN=3}]) |
0s |
passed |
| collapseSampleGenotypesTest[19](sample, [[N*, N*, <INS>], [N*, N*, N*], [N*, <INS>, <INS>], [N*, <INS>, <INS>]], [{ECN=3}, {ECN=3}, {ECN=3}, {ECN=3}], N*, [sample N*/N*/<INS> {ECN=3}]) |
0s |
passed |
| collapseSampleGenotypesTest[1](sample, [[]], [{ECN=0, TEST_KEY_1=test}], N*, [sample NA {ECN=0, TEST_KEY_1=test}]) |
0s |
passed |
| collapseSampleGenotypesTest[20](sample, [[<INS>, <INS>, <INS>], [<INS>, <INS>, <INS>], [<INS>, <INS>, <INS>], [N*, <INS>, <INS>], [N*, <INS>, <INS>], [N*, N*, <INS>], [N*, N*, N*]], [{ECN=3}, {ECN=3}, {ECN=3}, {ECN=3}, {ECN=3}, {ECN=3}, {ECN=3}], N*, [sample N*/N*/<INS> {ECN=3}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[21](sample, [[N*], [<DEL>]], [{ECN=1, CN=1}, {ECN=1, CN=0}], N*, [sample <DEL> {CN=0, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[22](sample, [[N*], [.]], [{ECN=1, CN=1}, {ECN=1, CN=0}], N*, [sample N* {CN=1, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[23](sample, [[N*, N*], [N*, <DEL>]], [{ECN=2, CN=2}, {ECN=2, CN=1}], N*, [sample N*/<DEL> {CN=1, ECN=2}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[24](sample, [[N*, N*], [<DEL>, <DEL>]], [{ECN=2, CN=2}, {ECN=2, CN=0}], N*, [sample <DEL>/<DEL> {CN=0, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[25](sample, [[N*], [<DUP>]], [{ECN=1, CN=1}, {ECN=1, CN=2}], N*, [sample <DUP> {CN=2, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[26](sample, [[<DUP>], [<DUP>]], [{ECN=1, CNQ=20, CN=2}, {ECN=1, CNQ=30, CN=2}], N*, [sample <DUP> {CN=2, CNQ=30, ECN=1}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[27](sample, [[N*, N*], [N*, <DUP>]], [{ECN=2, CN=2}, {ECN=2, CN=3}], N*, [sample N*/<DUP> {CN=3, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[28](sample, [[N*, N*], [<DUP>, <DUP>]], [{ECN=2, CN=2}, {ECN=2, CN=4}], N*, [sample <DUP>/<DUP> {CN=4, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[29](sample, [[N*, N*], [N*, N*]], [{ECN=2, CN=2}, {ECN=2, CN=2}], N*, [sample N*/N* {CN=2, ECN=2}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[2](sample, [[.], [.]], [{ECN=1}, {ECN=1}], N*, [sample . {ECN=1}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[30](sample, [[N*, N*, N*], [N*, N*, <DUP>]], [{ECN=3, CN=3}, {ECN=3, CN=4}], N*, [sample N*/N*/<DUP> {CN=4, ECN=3}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[31](sample, [[N*, N*, N*], [N*, <DUP>, <DUP>]], [{ECN=3, CN=3}, {ECN=3, CN=5}], N*, [sample N*/<DUP>/<DUP> {CN=5, ECN=3}]) |
0s |
passed |
| collapseSampleGenotypesTest[32](sample, [[N*, N*, N*], [N*, N*, <DUP>], [., ., .]], [{ECN=3, CN=3}, {ECN=3, CN=4}, {ECN=3, CN=5}], N*, [sample N*/N*/<DUP> {CN=4, ECN=3}]) |
0s |
passed |
| collapseSampleGenotypesTest[33](sample, [[.], [.]], [{ECN=1, CN=1}, {ECN=1, CN=1}], N*, [sample . {CN=1, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[34](sample, [[.], [.]], [{ECN=1, CN=1}, {ECN=1, CN=2}], N*, [sample . {CN=1, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[35](sample, [[., .], [., .]], [{ECN=1, CNQ=30, CN=1}, {ECN=1, CNQ=30, CN=2}], N*, [sample ./. {CN=1, CNQ=30, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[36](sample, [[., .], [., .]], [{ECN=2, CNQ=30, CN=2}, {ECN=2, CNQ=30, CN=3}], N*, [sample ./. {CN=2, CNQ=30, ECN=2}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[37](sample, [[., .], [., .]], [{ECN=2, CNQ=30, CN=2}, {ECN=2, CNQ=30, CN=1}], N*, [sample ./. {CN=2, CNQ=30, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[38](sample, [[., .], [., .]], [{ECN=2, CNQ=30, CN=2}, {ECN=2, CNQ=30, CN=0}], N*, [sample ./. {CN=2, CNQ=30, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[39](sample, [[., .], [., .]], [{ECN=2, CNQ=30, CN=1}, {ECN=2, CNQ=30, CN=0}], N*, [sample ./. {CN=1, CNQ=30, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[3](sample, [[T*], [T*]], [{ECN=1}, {ECN=1}], T*, [sample T* {ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[40](sample, [[., .], [., .]], [{ECN=2, CNQ=30, CN=5}, {ECN=2, CNQ=30, CN=6}], N*, [sample ./. {CN=5, CNQ=30, ECN=2}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[41](sample, [[.], [.]], [{ECN=1, CNQ=30, CN=2}, {ECN=1, CNQ=40, CN=0}], N*, [sample . {CN=0, CNQ=40, ECN=1}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[42](sample, [[.], [.]], [{ECN=1, CNQ=50, CN=2}, {ECN=1, CNQ=40, CN=0}], N*, [sample . {CN=2, CNQ=50, ECN=1}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[43](sample, [[.], [.]], [{ECN=1, CNQ=30, CN=2}, {ECN=1, CNQ=30, CN=0}], N*, [sample . {CN=0, CNQ=30, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[44](sample, [[.], [.]], [{ECN=2, CNQ=30, CN=0}, {ECN=2, CNQ=30, CN=4}], N*, [sample . {CN=0, CNQ=30, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[45](sample, [[.], [.]], [{ECN=2, CNQ=30, CN=1}, {ECN=2, CNQ=30, CN=3}], N*, [sample . {CN=1, CNQ=30, ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[4](sample, [[T*], [.]], [{ECN=1}, {ECN=1}], T*, [sample T* {ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[5](sample, [[N*, N*], [N*, N*]], [{ECN=2}, {ECN=2}], N*, [sample N*/N* {ECN=2}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[6](sample, [[N*, N*], [., .]], [{ECN=2}, {ECN=2}], N*, [sample N*/N* {ECN=2}]) |
0s |
passed |
| collapseSampleGenotypesTest[7](sample, [[N*], [<INS>]], [{ECN=1}, {ECN=1}], N*, [sample <INS> {ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[8](sample, [[.], [<INS>]], [{ECN=1, GQ=30}, {ECN=1, GQ=20}], N*, [sample <INS> {ECN=1, GQ=20}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[9](sample, [[<INS>], [<INS>]], [{ECN=1, GQ=20}, {ECN=1, GQ=30}], N*, [sample <INS> {ECN=1, GQ=30}]) |
0s |
passed |
| collapseTypesTest[0]([DEL], DEL) |
0s |
passed |
| collapseTypesTest[10]([INV, INV], INV) |
0s |
passed |
| collapseTypesTest[11]([BND, BND], BND) |
0s |
passed |
| collapseTypesTest[12]([CNV, CNV], CNV) |
0.001s |
passed |
| collapseTypesTest[13]([DEL, DUP, CNV], CNV) |
0s |
passed |
| collapseTypesTest[1]([DUP], DUP) |
0s |
passed |
| collapseTypesTest[2]([INS], INS) |
0s |
passed |
| collapseTypesTest[3]([INV], INV) |
0s |
passed |
| collapseTypesTest[4]([BND], BND) |
0s |
passed |
| collapseTypesTest[5]([CNV], CNV) |
0s |
passed |
| collapseTypesTest[6]([DEL, DUP], CNV) |
0.001s |
passed |
| collapseTypesTest[7]([DEL, DEL], DEL) |
0s |
passed |
| collapseTypesTest[8]([DUP, DUP], DUP) |
0.001s |
passed |
| collapseTypesTest[9]([INS, INS], INS) |
0s |
passed |
| getMostPreciseCallsTest[0]([Ljava.lang.String;@77f43f3e, [[depth]], [depth1]) |
0s |
passed |
| getMostPreciseCallsTest[1]([Ljava.lang.String;@311d8595, [[depth], [depth]], [depth1, depth2]) |
0s |
passed |
| getMostPreciseCallsTest[2]([Ljava.lang.String;@6f05d5f2, [[pesr]], [pesr1]) |
0.002s |
passed |
| getMostPreciseCallsTest[3]([Ljava.lang.String;@6bac199f, [[pesr], [pesr]], [pesr1, pesr2]) |
0s |
passed |
| getMostPreciseCallsTest[4]([Ljava.lang.String;@47a9bcf1, [[depth], [pesr]], [pesr1]) |
0s |
passed |
| getMostPreciseCallsTest[5]([Ljava.lang.String;@1ca2d595, [[depth, pesr], [depth]], [mixed1]) |
0.001s |
passed |
| getMostPreciseCallsTest[6]([Ljava.lang.String;@36e23af, [[depth, pesr], [pesr]], [pesr1, mixed1]) |
0s |
passed |
| makeBiallelicListTest[0](<DEL>, A*, 0, 0, []) |
0.001s |
passed |
| makeBiallelicListTest[1](<DEL>, A*, 0, 1, [A*]) |
0s |
passed |
| makeBiallelicListTest[2](<DEL>, A*, 1, 1, [<DEL>]) |
0s |
passed |
| makeBiallelicListTest[3](<INS>, A*, 1, 1, [<INS>]) |
0.001s |
passed |
| makeBiallelicListTest[4](<DEL>, A*, 1, 2, [A*, <DEL>]) |
0s |
passed |
| makeBiallelicListTest[5](<DEL>, A*, 2, 2, [<DEL>, <DEL>]) |
0s |
passed |
| makeBiallelicListTest[6](<DEL>, A*, 2, 2, [<DEL>, <DEL>]) |
0s |
passed |
| makeBiallelicListTest[7](<DEL>, A*, 2, 3, [A*, <DEL>, <DEL>]) |
0s |
passed |
| testCollapseRefAlleles[0](1, N*) |
0s |
passed |
| testCollapseRefAlleles[1](100000, C*) |
0s |
passed |
| testCollapseRefAlleles[2](100001, A*) |
0s |
passed |
| testCollapseRefAlleles[3](100002, C*) |
0s |
passed |
| testCollapseRefAlleles[4](100003, T*) |
0s |
passed |
| testCollapseRefAlleles[5](248956422, N*) |
0s |
passed |
| testCollapse[0](org.broadinstitute.hellbender.tools.sv.cluster.SVClusterEngine$OutputCluster@310045fc, org.broadinstitute.hellbender.tools.sv.SVCallRecord@ae20523) |
0.001s |
passed |
| testCollapse[1](org.broadinstitute.hellbender.tools.sv.cluster.SVClusterEngine$OutputCluster@2700609f, org.broadinstitute.hellbender.tools.sv.SVCallRecord@141cee26) |
0.001s |
passed |
| testCollapse[2](org.broadinstitute.hellbender.tools.sv.cluster.SVClusterEngine$OutputCluster@58d9cd6, org.broadinstitute.hellbender.tools.sv.SVCallRecord@21ad0060) |
0.004s |
passed |
| testComplexSubtypeAndIntervals |
0.007s |
passed |
| testConstructBndAllele[0](true, true, contigB, 10, A, A]contigB:10]) |
0s |
passed |
| testConstructBndAllele[1](true, false, contigB, 10, T, T[contigB:10[) |
0s |
passed |
| testConstructBndAllele[2](false, true, contigB, 20, C, ]contigB:20]C) |
0.002s |
passed |
| testConstructBndAllele[3](false, false, contigB, 20, G, [contigB:20[G) |
0s |
passed |
| testGetDistance[0](5, 10, [I@6ba6f4e7, [I@3d45ea17, 15) |
0s |
passed |
| testGetDistance[1](5, 10, [I@24a696c0, [I@78fb4f7f, 5) |
0s |
passed |
| testGetDistance[2](5, 10, [I@756476a3, [I@65e4ee59, 10) |
0s |
passed |
| testGetDistance[3](5, 10, [I@4d0927df, [I@1b0e81b3, 0) |
0s |
passed |
| testGetDistance[4](5, 10, [I@28446b06, [I@2cf7860e, 11) |
0s |
passed |
| testGetDistance[5](0, 0, [I@4b5c84be, [I@404bca88, 0) |
0s |
passed |
| testGetDistance[6](-5, -10, [I@4f517209, [I@60877629, 11) |
0s |
passed |
| testHarmonizeAltAlleles[0]([<DEL>], [[null A*/<DEL>]], null) |
0.001s |
passed |
| testHarmonizeAltAlleles[1]([<DEL>], [[null A*/A*]], null) |
0s |
passed |
| testHarmonizeAltAlleles[2]([], [[null A*/A*]], null) |
0s |
passed |
| testHarmonizeAltAlleles[3]([<DEL>, <DUP>], [[null A*/<DEL>]], null) |
0.001s |
passed |
| testHarmonizeAltAlleles[4]([<DEL>, <DUP>], [[null A*/A*]], null) |
0s |
passed |
| testHarmonizeAltAlleles[5]([<DEL>, <DUP>], [[null A*/<DEL>], [null A*/<DUP>]], null) |
0s |
passed |
| testHarmonizeAltAlleles[6]([<DUP>], [[null A*/<DUP:TANDEM>]], [[null A*/<DUP>]]) |
0s |
passed |
| testHarmonizeAltAlleles[7]([<DUP:TANDEM>], [[null A*/<DUP>]], [[null A*/<DUP:TANDEM>]]) |
0s |
passed |
| testHarmonizeAltAlleles[8]([<DUP:TANDEM>], [[null A*/<DUP>], [null A*/<DUP:TANDEM>]], [[null A*/<DUP:TANDEM>], [null A*/<DUP:TANDEM>]]) |
0s |
passed |
| testHarmonizeAltAlleles[9]([<INS:MEI>], [[null A*/<INS>], [null A*/<INS:MEI>]], [[null A*/<INS:MEI>], [null A*/<INS:MEI>]]) |
0s |
passed |