| Test |
Duration |
Result |
| collapseAlgorithmsTest[0]([[depth]], [depth]) |
0s |
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]) |
0.001s |
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]) |
0.001s |
passed |
| collapseAltAllelesTest[0]([[]], DEL, [Ljava.lang.Integer;@304d6881, [Ljava.lang.Integer;@9af2a00, [], []) |
0s |
passed |
| collapseAltAllelesTest[10]([[<INS>], [<INS:MEI>]], INS, [Ljava.lang.Integer;@546ab02b, [Ljava.lang.Integer;@7bec83d5, [<INS>], [<INS:MEI>]) |
0.001s |
passed |
| collapseAltAllelesTest[11]([[<INS:MEI>], [<INS:MEI:SVA>]], INS, [Ljava.lang.Integer;@10ac5a14, [Ljava.lang.Integer;@5cfcb55c, [<INS:MEI>], [<INS:MEI:SVA>]) |
0s |
passed |
| collapseAltAllelesTest[12]([[<INS:MEI:LINE>], [<INS:MEI:SVA>]], INS, [Ljava.lang.Integer;@2dca3c72, [Ljava.lang.Integer;@5fc4af25, [<INS:MEI>], [<INS:MEI>]) |
0.001s |
passed |
| collapseAltAllelesTest[1]([[N*]], DEL, [Ljava.lang.Integer;@7b900883, [Ljava.lang.Integer;@a555005, [], []) |
0s |
passed |
| collapseAltAllelesTest[2]([[A*]], DEL, [Ljava.lang.Integer;@42d039ef, [Ljava.lang.Integer;@397ff526, [], []) |
0s |
passed |
| collapseAltAllelesTest[3]([[.]], DEL, [Ljava.lang.Integer;@48d588dd, [Ljava.lang.Integer;@b09df69, [], []) |
0.001s |
passed |
| collapseAltAllelesTest[4]([[A]], INS, [Ljava.lang.Integer;@623dac3, [Ljava.lang.Integer;@625439ba, [A], [A]) |
0s |
passed |
| collapseAltAllelesTest[5]([[<DEL>]], DEL, [Ljava.lang.Integer;@2416378c, [Ljava.lang.Integer;@3c7b040f, [<DEL>], [<DEL>]) |
0.001s |
passed |
| collapseAltAllelesTest[6]([[N*], [<DEL>]], DEL, [Ljava.lang.Integer;@427faf19, [Ljava.lang.Integer;@57404a8d, [<DEL>], [<DEL>]) |
0s |
passed |
| collapseAltAllelesTest[7]([[N*, N*], [N*, <DEL>]], DEL, [Ljava.lang.Integer;@4734a551, [Ljava.lang.Integer;@780ccdc9, [<DEL>], [<DEL>]) |
0s |
passed |
| collapseAltAllelesTest[8]([[N*, <DUP>], [N*, <DEL>]], CNV, [Ljava.lang.Integer;@65c2610f, [Ljava.lang.Integer;@73e4ecb, [<DEL>, <DUP>], [<DEL>, <DUP>]) |
0s |
passed |
| collapseAltAllelesTest[9]([[<INS:MEI>], [<INS:MEI>]], INS, [Ljava.lang.Integer;@5bee88e3, [Ljava.lang.Integer;@2dd25088, [<INS:MEI>], [<INS:MEI>]) |
0s |
passed |
| collapseAttributesTest[0]([Ljava.lang.String;@494f74cd, [Ljava.lang.Object;@359ae83a, [Ljava.lang.String;@4fddd42b, [Ljava.lang.Object;@7473cf13, [Ljava.lang.String;@4628344c, [Ljava.lang.Object;@2411cf8b, OR) |
0.001s |
passed |
| collapseAttributesTest[10]([Ljava.lang.String;@45dc4d1a, [Ljava.lang.Object;@4dbcc8ce, [Ljava.lang.String;@60a98fa6, [Ljava.lang.Object;@3af4b14e, [Ljava.lang.String;@1de78f97, [Ljava.lang.Object;@36b6ce5d, OR) |
0.001s |
passed |
| collapseAttributesTest[11]([Ljava.lang.String;@52f1f54, [Ljava.lang.Object;@2495a351, [Ljava.lang.String;@245155b8, [Ljava.lang.Object;@4b6cb083, [Ljava.lang.String;@3644d305, [Ljava.lang.Object;@3fc261b7, OR) |
0s |
passed |
| collapseAttributesTest[12]([Ljava.lang.String;@3fd64d6b, [Ljava.lang.Object;@2f9a7d6f, [Ljava.lang.String;@3f96ef2, [Ljava.lang.Object;@12039ae0, [Ljava.lang.String;@1fb320de, [Ljava.lang.Object;@633e4742, AND) |
0.001s |
passed |
| collapseAttributesTest[13]([Ljava.lang.String;@23110196, [Ljava.lang.Object;@328446e1, [Ljava.lang.String;@584f12eb, [Ljava.lang.Object;@6eda3ade, [Ljava.lang.String;@45ec9b22, [Ljava.lang.Object;@554f6e30, AND) |
0s |
passed |
| collapseAttributesTest[14]([Ljava.lang.String;@4a842e8a, [Ljava.lang.Object;@6b909973, [Ljava.lang.String;@458044df, [Ljava.lang.Object;@f4cfc61, [Ljava.lang.String;@64d7737c, [Ljava.lang.Object;@b632594, AND) |
0s |
passed |
| collapseAttributesTest[15]([Ljava.lang.String;@24456c9e, [Ljava.lang.Object;@7bd6a7f9, [Ljava.lang.String;@690b6292, [Ljava.lang.Object;@34207fde, [Ljava.lang.String;@3b8ec458, [Ljava.lang.Object;@75a955bf, AND) |
0.001s |
passed |
| collapseAttributesTest[16]([Ljava.lang.String;@2b7e739, [Ljava.lang.Object;@60e2b6e3, [Ljava.lang.String;@7f6e9e03, [Ljava.lang.Object;@20f1c8ed, [Ljava.lang.String;@1dc26de5, [Ljava.lang.Object;@68628510, AND) |
0s |
passed |
| collapseAttributesTest[17]([Ljava.lang.String;@4def8aaa, [Ljava.lang.Object;@43cc7bb7, [Ljava.lang.String;@3ffa3cdb, [Ljava.lang.Object;@605610e5, [Ljava.lang.String;@515d6c9f, [Ljava.lang.Object;@716cb4c0, AND) |
0s |
passed |
| collapseAttributesTest[18]([Ljava.lang.String;@4f1fb8fc, [Ljava.lang.Object;@759c0c14, [Ljava.lang.String;@61427cd3, [Ljava.lang.Object;@ca72afb, [Ljava.lang.String;@3e4dabcb, [Ljava.lang.Object;@2b24fcba, AND) |
0s |
passed |
| collapseAttributesTest[19]([Ljava.lang.String;@6c37b0de, [Ljava.lang.Object;@3f774d60, [Ljava.lang.String;@333ab718, [Ljava.lang.Object;@7fcbed77, [Ljava.lang.String;@2e2b1310, [Ljava.lang.Object;@2b3247f8, ALWAYS_FALSE) |
0s |
passed |
| collapseAttributesTest[1]([Ljava.lang.String;@6fad6743, [Ljava.lang.Object;@68a0a4ae, [Ljava.lang.String;@426753a6, [Ljava.lang.Object;@2692910f, [Ljava.lang.String;@22816de1, [Ljava.lang.Object;@4f6938cb, OR) |
0s |
passed |
| collapseAttributesTest[2]([Ljava.lang.String;@5434de8, [Ljava.lang.Object;@2c84d6c4, [Ljava.lang.String;@2a2d0cff, [Ljava.lang.Object;@40eb85e9, [Ljava.lang.String;@5f58ac11, [Ljava.lang.Object;@55e073c8, OR) |
0s |
passed |
| collapseAttributesTest[3]([Ljava.lang.String;@bb0dcb6, [Ljava.lang.Object;@1192d1f5, [Ljava.lang.String;@47ba8e3c, [Ljava.lang.Object;@1638fa8b, [Ljava.lang.String;@1b60c196, [Ljava.lang.Object;@1c7aa676, OR) |
0s |
passed |
| collapseAttributesTest[4]([Ljava.lang.String;@5e9f4f76, [Ljava.lang.Object;@43ee4942, [Ljava.lang.String;@a6e0e5f, [Ljava.lang.Object;@15d6f0e1, [Ljava.lang.String;@3116e9d2, [Ljava.lang.Object;@312eb, OR) |
0s |
passed |
| collapseAttributesTest[5]([Ljava.lang.String;@58965e17, [Ljava.lang.Object;@5e4874ae, [Ljava.lang.String;@4644b1c6, [Ljava.lang.Object;@13b666b4, [Ljava.lang.String;@793af433, [Ljava.lang.Object;@644a12be, OR) |
0s |
passed |
| collapseAttributesTest[6]([Ljava.lang.String;@274010fe, [Ljava.lang.Object;@975f349, [Ljava.lang.String;@3d1ecf3b, [Ljava.lang.Object;@204bd52d, [Ljava.lang.String;@72bf63a, [Ljava.lang.Object;@2162b22d, OR) |
0s |
passed |
| collapseAttributesTest[7]([Ljava.lang.String;@14d294f4, [Ljava.lang.Object;@4c902a72, [Ljava.lang.String;@78571a17, [Ljava.lang.Object;@6434d49e, [Ljava.lang.String;@64c189d8, [Ljava.lang.Object;@294ffc88, OR) |
0s |
passed |
| collapseAttributesTest[8]([Ljava.lang.String;@2b5a659f, [Ljava.lang.Object;@43bda665, [Ljava.lang.String;@1540b926, [Ljava.lang.Object;@3a07afe6, [Ljava.lang.String;@428943a4, [Ljava.lang.Object;@6ca95b1e, OR) |
0s |
passed |
| collapseAttributesTest[9]([Ljava.lang.String;@7b4fbedb, [Ljava.lang.Object;@73534675, [Ljava.lang.String;@550482aa, [Ljava.lang.Object;@2b7b6f58, [Ljava.lang.String;@2dc4b58a, [Ljava.lang.Object;@44cd3ea9, OR) |
0.001s |
passed |
| collapseIntervalRepresentativeByCoordinatesTest |
0.001s |
passed |
| collapseIntervalRepresentativeTest[0](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@545ffe1, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@1805b503, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[10](-99.0, -99.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@776e4088, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5e7d994c, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[11](null, 0.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@3077e4aa, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@3518882c, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[12](0.0, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7ff48cdc, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7029653c, true) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[13](null, 0.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@68f4c6e7, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@33bd3549, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[14](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7df5358, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@49d26eba, true) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[15](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@2e90a3de, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@532860c7, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[16](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@595713f3, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7bbd133c, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[17](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7e93497d, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@1fba15d7, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[18](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@21f4f5d4, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@45488836, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[19](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@687313e1, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@6eaf016e, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[1](0.0, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@5331a22c, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@79a1f55c, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[20](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7ce87db5, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@c7485d2, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[2](null, 0.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@815e8e3, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@566b1b0f, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[3](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@23faae85, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@48f08e9, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[4](-99.0, -99.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@cea6297, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@51db8b10, false) |
0.001s |
passed |
| collapseIntervalRepresentativeTest[5](null, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@91e76b6, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@563f53d8, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[6](-99.0, null, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@6bd5ca02, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@4758f533, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[7](null, -99.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@262e2c8c, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@636e6791, false) |
0s |
passed |
| collapseIntervalRepresentativeTest[8](-10.0, -9.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@54353bb1, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@3a837f7, true) |
0s |
passed |
| collapseIntervalRepresentativeTest[9](-10.0, -9.0, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@f54cdc4, [Lorg.broadinstitute.hellbender.tools.spark.sv.utils.GATKSVVCFConstants$EvidenceTypes;@7241872c, true) |
0s |
passed |
| collapseIntervalTest[0]([Ljava.lang.String;@4cda8d3b, [I@73e054c0, [I@5b12157b, DEL, [I@73760b13, [I@6b5df313, [I@1a6aecec, [I@51989b17) |
0.012s |
passed |
| collapseIntervalTest[1]([Ljava.lang.String;@35645453, [I@454056b, [I@2a882681, DEL, [I@525b999, [I@12f4b3a2, [I@36af93ca, [I@5d7807b0) |
0.001s |
passed |
| collapseIntervalTest[2]([Ljava.lang.String;@f64ce35, [I@397ba74b, [I@1a288163, DEL, [I@5e5d26e4, [I@77614e7c, [I@1344ee24, [I@4d3946b6) |
0.001s |
passed |
| collapseIntervalTest[3]([Ljava.lang.String;@78b906d, [I@330a6b76, [I@34018757, DUP, [I@6f21c18f, [I@34723cfe, [I@54c3b0dd, [I@6c40ae2d) |
0s |
passed |
| collapseIntervalTest[4]([Ljava.lang.String;@283c6f00, [I@61b06782, [I@8e89c5f, DUP, [I@6434827e, [I@2f3ba597, [I@4d555b85, [I@1132c14) |
0.001s |
passed |
| collapseIntervalTest[5]([Ljava.lang.String;@33116b8e, [I@54ff871a, [I@4c94621d, BND, [I@2ecb7f0c, [I@16be2c40, [I@3e51beda, [I@51bab787) |
0s |
passed |
| collapseIntervalTest[6]([Ljava.lang.String;@43c76550, [I@70d3b49c, [I@7451338e, BND, [I@34e0d52e, [I@4cf5db07, [I@216fe151, [I@5cdf6bb1) |
0s |
passed |
| collapseIntervalTest[7]([Ljava.lang.String;@ceb4f91, [I@52d04234, [I@75f5293c, INS, [I@3f7e72a7, [I@69bf351e, [I@39ae0bff, [I@654e793f) |
0s |
passed |
| collapseIntervalTest[8]([Ljava.lang.String;@39ee039d, [I@705606ac, [I@66c70e18, INS, [I@1ea44b7, [I@48515dfc, [I@8f2513c, [I@561b39f4) |
0s |
passed |
| collapseInvalidAltAllelesTest |
0.001s |
passed |
| collapseLengthTest[0](org.broadinstitute.hellbender.tools.sv.SVCallRecord@5d9ac1ff, INS, 100) |
0s |
passed |
| collapseLengthTest[1](org.broadinstitute.hellbender.tools.sv.SVCallRecord@6ff879e5, INS, null) |
0s |
passed |
| collapseLengthTest[2](org.broadinstitute.hellbender.tools.sv.SVCallRecord@7b9e4a2a, BND, null) |
0s |
passed |
| collapseLengthTest[3](org.broadinstitute.hellbender.tools.sv.SVCallRecord@9a3d0f4, CTX, null) |
0s |
passed |
| collapseLengthTest[4](org.broadinstitute.hellbender.tools.sv.SVCallRecord@77d5c4c6, CPX, 50) |
0s |
passed |
| collapseLengthTest[5](org.broadinstitute.hellbender.tools.sv.SVCallRecord@a929b6, DEL, 100) |
0s |
passed |
| collapseLengthTest[6](org.broadinstitute.hellbender.tools.sv.SVCallRecord@3f07eede, DUP, 200) |
0s |
passed |
| collapseLengthTest[7](org.broadinstitute.hellbender.tools.sv.SVCallRecord@328a1843, 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}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[14](sample, [[<INS>, <INS>], [N*, <INS>]], [{ECN=2, GQ=40}, {ECN=2, GQ=30}], N*, [sample <INS>/<INS> {ECN=2, GQ=40}]) |
0s |
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}]) |
0s |
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}]) |
0.001s |
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}]) |
0s |
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}]) |
0.001s |
passed |
| collapseSampleGenotypesTest[23](sample, [[N*, N*], [N*, <DEL>]], [{ECN=2, CN=2}, {ECN=2, CN=1}], N*, [sample N*/<DEL> {CN=1, ECN=2}]) |
0s |
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}]) |
0.001s |
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}]) |
0s |
passed |
| collapseSampleGenotypesTest[27](sample, [[N*, N*], [N*, <DUP>]], [{ECN=2, CN=2}, {ECN=2, CN=3}], N*, [sample N*/<DUP> {CN=3, ECN=2}]) |
0.001s |
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}]) |
0s |
passed |
| collapseSampleGenotypesTest[2](sample, [[.], [.]], [{ECN=1}, {ECN=1}], N*, [sample . {ECN=1}]) |
0s |
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}]) |
0s |
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}]) |
0.001s |
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}]) |
0s |
passed |
| collapseSampleGenotypesTest[37](sample, [[., .], [., .]], [{ECN=2, CNQ=30, CN=2}, {ECN=2, CNQ=30, CN=1}], N*, [sample ./. {CN=2, CNQ=30, ECN=2}]) |
0.001s |
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}]) |
0.001s |
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}]) |
0s |
passed |
| collapseSampleGenotypesTest[41](sample, [[.], [.]], [{ECN=1, CNQ=30, CN=2}, {ECN=1, CNQ=40, CN=0}], N*, [sample . {CN=0, CNQ=40, ECN=1}]) |
0s |
passed |
| collapseSampleGenotypesTest[42](sample, [[.], [.]], [{ECN=1, CNQ=50, CN=2}, {ECN=1, CNQ=40, CN=0}], N*, [sample . {CN=2, CNQ=50, ECN=1}]) |
0s |
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}]) |
0.001s |
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}]) |
0s |
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}]) |
0s |
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) |
0s |
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) |
0s |
passed |
| collapseTypesTest[7]([DEL, DEL], DEL) |
0s |
passed |
| collapseTypesTest[8]([DUP, DUP], DUP) |
0s |
passed |
| collapseTypesTest[9]([INS, INS], INS) |
0s |
passed |
| getMostPreciseCallsTest[0]([Ljava.lang.String;@794ffe22, [[depth]], [depth1]) |
0s |
passed |
| getMostPreciseCallsTest[1]([Ljava.lang.String;@71d94ab, [[depth], [depth]], [depth1, depth2]) |
0s |
passed |
| getMostPreciseCallsTest[2]([Ljava.lang.String;@76c1ede3, [[pesr]], [pesr1]) |
0s |
passed |
| getMostPreciseCallsTest[3]([Ljava.lang.String;@eb9b76c, [[pesr], [pesr]], [pesr1, pesr2]) |
0s |
passed |
| getMostPreciseCallsTest[4]([Ljava.lang.String;@6752d7fc, [[depth], [pesr]], [pesr1]) |
0s |
passed |
| getMostPreciseCallsTest[5]([Ljava.lang.String;@4476ac12, [[depth, pesr], [depth]], [mixed1]) |
0s |
passed |
| getMostPreciseCallsTest[6]([Ljava.lang.String;@3569f0f1, [[depth, pesr], [pesr]], [pesr1, mixed1]) |
0s |
passed |
| makeBiallelicListTest[0](<DEL>, A*, 0, 0, []) |
0s |
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>]) |
0s |
passed |
| makeBiallelicListTest[4](<DEL>, A*, 1, 2, [A*, <DEL>]) |
0.001s |
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$OutputCluster@6375af2a, org.broadinstitute.hellbender.tools.sv.SVCallRecord@4b37ede0) |
0.001s |
passed |
| testCollapse[1](org.broadinstitute.hellbender.tools.sv.cluster.SVClusterEngine$OutputCluster@644ae4ff, org.broadinstitute.hellbender.tools.sv.SVCallRecord@2a080ba3) |
0s |
passed |
| testCollapse[2](org.broadinstitute.hellbender.tools.sv.cluster.SVClusterEngine$OutputCluster@3a4ddaed, org.broadinstitute.hellbender.tools.sv.SVCallRecord@993bc47) |
0.004s |
passed |
| testComplexSubtypeAndIntervals |
0.008s |
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@614da024, [I@4b76a0f4, 15) |
0.001s |
passed |
| testGetDistance[1](5, 10, [I@65314e4, [I@a93c88a, 5) |
0s |
passed |
| testGetDistance[2](5, 10, [I@db372b, [I@1e31e7e0, 10) |
0s |
passed |
| testGetDistance[3](5, 10, [I@1bbebf8e, [I@4285b1bd, 0) |
0s |
passed |
| testGetDistance[4](5, 10, [I@4caeeab6, [I@22027e62, 11) |
0s |
passed |
| testGetDistance[5](0, 0, [I@4cf93f80, [I@77b987f3, 0) |
0s |
passed |
| testGetDistance[6](-5, -10, [I@22263e1a, [I@272600e1, 11) |
0s |
passed |
| testHarmonizeAltAlleles[0]([<DEL>], [[null A*/<DEL>]], null) |
0s |
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) |
0s |
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>]]) |
0.001s |
passed |
| testHarmonizeAltAlleles[8]([<DUP:TANDEM>], [[null A*/<DUP>], [null A*/<DUP:TANDEM>]], [[null A*/<DUP:TANDEM>], [null A*/<DUP:TANDEM>]]) |
0.003s |
passed |
| testHarmonizeAltAlleles[9]([<INS:MEI>], [[null A*/<INS>], [null A*/<INS:MEI>]], [[null A*/<INS:MEI>], [null A*/<INS:MEI>]]) |
0.001s |
passed |