{"sha": "19ec8a2da4b35c55075f155f9fb4d01281774fe5", "data": {"nexml": {"@generator": "Phylografter nexml-json exporter", "@id": "study", "@nexml2json": "1.2.1", "@nexmljson": "http://purl.org/opentree/nexson", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^ot:agents": {"agent": [{"@description": "validator of NexSON constraints as well as constraints that would allow a study to be imported into the Open Tree of Life's phylogenetic synthesis tools", "@id": "peyotl-validator", "@name": "validate_ot_nexson.py", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": ["--embed", "--agent-only"], "otherProperty": [{"name": "pythonVersion", "value": "2.7.5+"}, {"name": "pythonImplementation", "value": "CPython"}]}}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0"}]}, "^ot:annotationEvents": {"annotation": [{"@dateCreated": "2014-07-01T16:29:02.889Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"searchContext": {"$": "All life"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2014-07-01T16:29:02.889Z", "@description": "Describes supporting data files for this study", "@id": "supporting-files-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "SUPPORTING_FILE_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"@movedToPermanentArchive": false, "files": {"file": []}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:ottId"], "refersTo": {"@top": "otus", "@idref": "otu386375", "@otusID": "otus2599", "@otuID": "otu386375"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:comment"], "refersTo": {"@top": "nexml", "@idref": "study"}, "@severity": "WARNING"}]}]}, "^ot:candidateTreeForSynthesis": ["tree6021"], "^ot:comment": "", "^ot:curatorName": ["Joseph Brown", "Joseph W. Brown"], "^ot:dataDeposit": {"@href": ""}, "^ot:focalClade": 662954, "^ot:focalCladeOTTTaxonName": "Alaudidae", "^ot:messages": {"message": []}, "^ot:notIntendedForSynthesis": false, "^ot:otusElementOrder": ["otus2599"], "^ot:studyId": "pg_2599", "^ot:studyPublication": {"@href": "http://dx.doi.org/10.1016/j.ympev.2013.06.005"}, "^ot:studyPublicationReference": "Alstr\u00f6m, Per, Keith N. Barnes, Urban Olsson, F. Keith Barker, Paulette Bloomer, Aleem Ahmed Khan, Masood Ahmed Qureshi, Alban Guillaumet, Pierre-Andr\u00e9 Crochet, Peter G. Ryan. 2013. Multilocus phylogeny of the avian family Alaudidae (larks) reveals complex morphological evolution, non-monophyletic genera and hidden species diversity. Molecular Phylogenetics and Evolution 69 (3): 1043-1056.", "^ot:studyYear": 2013, "^ot:tag": ["ingroup added;"], "^ot:treesElementOrder": ["trees2599"], "otusById": {"otus2599": {"otuById": {"otu386375": {"^ot:originalLabel": "Panurus"}, "otu386376": {"^ot:originalLabel": "Prinia bairdii", "^ot:ottId": 174109, "^ot:ottTaxonName": "Prinia bairdii"}, "otu386377": {"^ot:originalLabel": "Alaemon alaudipes", "^ot:ottId": 1079834, "^ot:ottTaxonName": "Alaemon alaudipes"}, "otu386378": {"^ot:originalLabel": "Ammomanes grayi", "^ot:ottId": 156651, "^ot:ottTaxonName": "Ammomanes grayi"}, "otu386379": {"^ot:originalLabel": "Certhilauda benguelensis", "^ot:ottId": 3597548, "^ot:ottTaxonName": "Certhilauda benguelensis"}, "otu386380": {"^ot:originalLabel": "Certhilauda subcoronata", "^ot:ottId": 140587, "^ot:ottTaxonName": "Certhilauda subcoronata"}, "otu386381": {"^ot:originalLabel": "Certhilauda brevirostris", "^ot:ottId": 140581, "^ot:ottTaxonName": "Certhilauda brevirostris"}, "otu386382": {"^ot:originalLabel": "Certhilauda curvirostris", "^ot:ottId": 140583, "^ot:ottTaxonName": "Certhilauda curvirostris"}, "otu386383": {"^ot:originalLabel": "Certhilauda semitorquata1.0", "^ot:ottId": 140588, "^ot:ottTaxonName": "Certhilauda semitorquata"}, "otu386384": {"^ot:originalLabel": "Certhilauda chuana", "^ot:ottId": 140584, "^ot:ottTaxonName": "Certhilauda chuana"}, "otu386385": {"^ot:originalLabel": "Chersomanes albofasciata", "^ot:ottId": 156654, "^ot:ottTaxonName": "Chersomanes albofasciata"}, "otu386386": {"^ot:originalLabel": "Chersomanes beesleyi", "^ot:ottId": 3597502, "^ot:ottTaxonName": "Chersomanes beesleyi"}, "otu386387": {"^ot:originalLabel": "Ammomanes cincturus", "^ot:ottId": 3597505, "^ot:ottTaxonName": "Ammomanes cinctura"}, "otu386388": {"^ot:originalLabel": "Ammomanes deserti", "^ot:ottId": 59182, "^ot:ottTaxonName": "Ammomanes deserti"}, "otu386389": {"^ot:originalLabel": "Ramphocoris clotbey", "^ot:ottId": 3597571, "^ot:ottTaxonName": "Ramphocoris clotbey"}, "otu386390": {"^ot:originalLabel": "Pinarocorys erythropygia", "^ot:ottId": 3597568, "^ot:ottTaxonName": "Pinarocorys erythropygia"}, "otu386391": {"^ot:originalLabel": "Pinarocorys nigricans", "^ot:ottId": 3597564, "^ot:ottTaxonName": "Pinarocorys nigricans"}, "otu386392": {"^ot:originalLabel": "Eremopterix australis", "^ot:ottId": 636366, "^ot:ottTaxonName": "Eremopterix australis"}, "otu386393": {"^ot:originalLabel": "Eremopterix grisea", "^ot:ottId": 3597555, "^ot:ottTaxonName": "Eremopterix griseus"}, "otu386394": {"^ot:originalLabel": "Eremopterix leucopareia", "^ot:ottId": 3597550, "^ot:ottTaxonName": "Eremopterix leucopareia"}, "otu386395": {"^ot:originalLabel": "Eremopterix verticalis", "^ot:ottId": 140579, "^ot:ottTaxonName": "Eremopterix verticalis"}, "otu386396": {"^ot:originalLabel": "Eremopterix signata", "^ot:ottId": 3597554, "^ot:ottTaxonName": "Eremopterix signatus"}, "otu386397": {"^ot:originalLabel": "Eremopterix nigriceps", "^ot:ottId": 139502, "^ot:ottTaxonName": "Eremopterix nigriceps"}, "otu386398": {"^ot:originalLabel": "Mirafra hova", "^ot:ottId": 3597518, "^ot:ottTaxonName": "Mirafra hova"}, "otu386399": {"^ot:originalLabel": "Alauda arvensis", "^ot:ottId": 312548, "^ot:ottTaxonName": "Alauda arvensis"}, "otu386400": {"^ot:originalLabel": "Alauda gulgula", "^ot:ottId": 521612, "^ot:ottTaxonName": "Alauda gulgula"}, "otu386401": {"^ot:originalLabel": "Alauda razae", "^ot:ottId": 3597500, "^ot:ottTaxonName": "Alauda razae"}, "otu386402": {"^ot:originalLabel": "Melanocorypha leucoptera", "^ot:ottId": 3597556, "^ot:ottTaxonName": "Melanocorypha leucoptera"}, "otu386403": {"^ot:originalLabel": "Galerida macrorhyncha1.0", "^ot:ottId": 3597506, "^ot:ottTaxonName": "Galerida macrorhyncha"}, "otu386404": {"^ot:originalLabel": "Galerida malabarica", "^ot:ottId": 839851, "^ot:ottTaxonName": "Galerida malabarica"}, "otu386405": {"^ot:originalLabel": "Galerida cristata", "^ot:ottId": 207745, "^ot:ottTaxonName": "Galerida cristata"}, "otu386406": {"^ot:originalLabel": "Galerida theklae", "^ot:ottId": 1089983, "^ot:ottTaxonName": "Galerida theklae"}, "otu386407": {"^ot:originalLabel": "Galerida magnirostris", "^ot:ottId": 156649, "^ot:ottTaxonName": "Galerida magnirostris"}, "otu386408": {"^ot:originalLabel": "Galerida modesta", "^ot:ottId": 3597508, "^ot:ottTaxonName": "Galerida modesta"}, "otu386409": {"^ot:originalLabel": "Eremalauda starki", "^ot:ottId": 781897, "^ot:ottTaxonName": "Eremalauda starki"}, "otu386410": {"^ot:originalLabel": "Pseudalaemon freemantlii", "^ot:ottId": 3597576, "^ot:ottTaxonName": "Pseudalaemon fremantlii"}, "otu386411": {"^ot:originalLabel": "Spizocorys conirostris", "^ot:ottId": 3597542, "^ot:ottTaxonName": "Spizocorys conirostris"}, "otu386412": {"^ot:originalLabel": "Spizocorys fringillaris", "^ot:ottId": 3597545, "^ot:ottTaxonName": "Spizocorys fringillaris"}, "otu386413": {"^ot:originalLabel": "Spizocorys personata", "^ot:ottId": 3597544, "^ot:ottTaxonName": "Spizocorys personata"}, "otu386414": {"^ot:originalLabel": "Spizocorys sclateri", "^ot:ottId": 156647, "^ot:ottTaxonName": "Spizocorys sclateri"}, "otu386415": {"^ot:originalLabel": "Lullula arborea", "^ot:ottId": 781902, "^ot:ottTaxonName": "Lullula arborea"}, "otu386416": {"^ot:originalLabel": "Ammomanes dunni", "^ot:ottId": 3597547, "^ot:ottTaxonName": "Eremalauda dunni"}, "otu386417": {"^ot:originalLabel": "Chersophilus duponti", "^ot:ottId": 876889, "^ot:ottTaxonName": "Chersophilus duponti"}, "otu386418": {"^ot:originalLabel": "Calandrella athensis", "^ot:ottId": 3597509, "^ot:ottTaxonName": "Calandrella athensis"}, "otu386419": {"^ot:originalLabel": "Calandrella somalica", "^ot:ottId": 3597510, "^ot:ottTaxonName": "Calandrella somalica"}, "otu386420": {"^ot:originalLabel": "Calandrella cheleensis", "^ot:ottId": 947048, "^ot:ottTaxonName": "Calandrella cheleensis"}, "otu386421": {"^ot:originalLabel": "Calandrella raytal", "^ot:ottId": 3597511, "^ot:ottTaxonName": "Calandrella raytal"}, "otu386422": {"^ot:originalLabel": "Calandrella rufescens", "^ot:ottId": 781908, "^ot:ottTaxonName": "Calandrella rufescens"}, "otu386423": {"^ot:originalLabel": "Melanocorypha bimaculata", "^ot:ottId": 580150, "^ot:ottTaxonName": "Melanocorypha bimaculata"}, "otu386424": {"^ot:originalLabel": "Melanocorypha calandra", "^ot:ottId": 110605, "^ot:ottTaxonName": "Melanocorypha calandra"}, "otu386425": {"^ot:originalLabel": "Melanocorypha maxima", "^ot:ottId": 3597557, "^ot:ottTaxonName": "Melanocorypha maxima"}, "otu386426": {"^ot:originalLabel": "Melanocorypha mongolica", "^ot:ottId": 518141, "^ot:ottTaxonName": "Melanocorypha mongolica"}, "otu386427": {"^ot:originalLabel": "Melanocorypha yeltoniensis", "^ot:ottId": 3597558, "^ot:ottTaxonName": "Melanocorypha yeltoniensis"}, "otu386428": {"^ot:originalLabel": "Calandrella acutirostris", "^ot:ottId": 947046, "^ot:ottTaxonName": "Calandrella acutirostris"}, "otu386429": {"^ot:originalLabel": "Calandrella brachydactyla", "^ot:ottId": 947049, "^ot:ottTaxonName": "Calandrella brachydactyla"}, "otu386430": {"^ot:originalLabel": "Calandrella cinerea", "^ot:ottId": 3597513, "^ot:ottTaxonName": "Calandrella cinerea"}, "otu386431": {"^ot:originalLabel": "Eremophila alpestris", "^ot:ottId": 998122, "^ot:ottTaxonName": "Eremophila alpestris"}, "otu386432": {"^ot:originalLabel": "Eremophila bilopha", "^ot:ottId": 781906, "^ot:ottTaxonName": "Eremophila bilopha"}, "otu386433": {"^ot:originalLabel": "Certhilauda albescens", "^ot:ottId": 3597574, "^ot:ottTaxonName": "Calendulauda albescens"}, "otu386434": {"^ot:originalLabel": "Certhilauda barlowi1.0", "^ot:ottId": 3597575, "^ot:ottTaxonName": "Calendulauda barlowi"}, "otu386435": {"^ot:originalLabel": "Certhilauda erythroclamys", "^ot:ottId": 140582, "^ot:ottTaxonName": "Calendulauda erythroclamys"}, "otu386436": {"^ot:originalLabel": "Certhilauda burra", "^ot:ottId": 3597561, "^ot:ottTaxonName": "Calendulauda burra"}, "otu386437": {"^ot:originalLabel": "Mirafra africanoides", "^ot:ottId": 3597578, "^ot:ottTaxonName": "Calendulauda africanoides"}, "otu386438": {"^ot:originalLabel": "Mirafra alopex intercedens1.0", "^ot:ottId": 3597559, "^ot:ottTaxonName": "Calendulauda alopex"}, "otu386439": {"^ot:originalLabel": "Mirafra poicilosterna", "^ot:ottId": 3597565, "^ot:ottTaxonName": "Calendulauda poecilosterna"}, "otu386440": {"^ot:originalLabel": "Mirafra sabota", "^ot:ottId": 3597569, "^ot:ottTaxonName": "Calendulauda sabota"}, "otu386441": {"^ot:originalLabel": "Heteromirafra ruddi", "^ot:ottId": 3597579, "^ot:ottTaxonName": "Heteromirafra ruddi"}, "otu386442": {"^ot:originalLabel": "Heteromirafra sidamoensis", "^ot:ottId": 3597582, "^ot:ottTaxonName": "Heteromirafra sidamoensis"}, "otu386443": {"^ot:originalLabel": "Mirafra affinis", "^ot:ottId": 3597527, "^ot:ottTaxonName": "Mirafra affinis"}, "otu386444": {"^ot:originalLabel": "Mirafra erythroptera", "^ot:ottId": 3597526, "^ot:ottTaxonName": "Mirafra erythroptera"}, "otu386445": {"^ot:originalLabel": "Mirafra erythrocephala", "^ot:ottId": 3597531, "^ot:ottTaxonName": "Mirafra erythrocephala"}, "otu386446": {"^ot:originalLabel": "Mirafra assamica", "^ot:ottId": 63797, "^ot:ottTaxonName": "Mirafra assamica"}, "otu386447": {"^ot:originalLabel": "Mirafra microptera", "^ot:ottId": 3597541, "^ot:ottTaxonName": "Mirafra microptera"}, "otu386448": {"^ot:originalLabel": "Mirafra cantillans1.0", "^ot:ottId": 3597536, "^ot:ottTaxonName": "Mirafra cantillans"}, "otu386449": {"^ot:originalLabel": "Mirafra javanica", "^ot:ottId": 781904, "^ot:ottTaxonName": "Mirafra javanica"}, "otu386450": {"^ot:originalLabel": "Mirafra cheniana", "^ot:ottId": 3597528, "^ot:ottTaxonName": "Mirafra cheniana"}, "otu386451": {"^ot:originalLabel": "Mirafra passerina", "^ot:ottId": 156658, "^ot:ottTaxonName": "Mirafra passerina"}, "otu386452": {"^ot:originalLabel": "Mirafra williamsi", "^ot:ottId": 3597529, "^ot:ottTaxonName": "Mirafra williamsi"}, "otu386453": {"^ot:originalLabel": "Mirafra angolensis", "^ot:ottId": 3597516, "^ot:ottTaxonName": "Mirafra angolensis"}, "otu386454": {"^ot:originalLabel": "Mirafra rufocinnamomea", "^ot:ottId": 3597521, "^ot:ottTaxonName": "Mirafra rufocinnamomea"}, "otu386455": {"^ot:originalLabel": "Mirafra africana", "^ot:ottId": 99164, "^ot:ottTaxonName": "Mirafra africana"}, "otu386456": {"^ot:originalLabel": "Mirafra hypermetra", "^ot:ottId": 3597525, "^ot:ottTaxonName": "Mirafra hypermetra"}, "otu386457": {"^ot:originalLabel": "Mirafra apiata", "^ot:ottId": 3597522, "^ot:ottTaxonName": "Mirafra apiata"}, "otu386458": {"^ot:originalLabel": "Mirafra fasciolata", "^ot:ottId": 3597524, "^ot:ottTaxonName": "Mirafra fasciolata"}}}}, "treesById": {"trees2599": {"@otus": "otus2599", "^ot:treeElementOrder": ["tree6021"], "treeById": {"tree6021": {"@label": "MrBayes consensus", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:substitutionCount", "^ot:branchLengthTimeUnit": "", "^ot:curatedType": "Bayesian inference ", "^ot:inGroupClade": "node1030935", "^ot:outGroupEdge": "", "^ot:rootNodeId": "node1030931", "^ot:specifiedRoot": "node1030931", "^ot:tag": [], "^ot:unrootedTree": false, "edgeBySourceId": {"node1030931": {"edge1030932": {"@length": 0.02524330313304758, "@source": "node1030931", "@target": "node1030932"}, "edge1030935": {"@length": 0.0504866062661, "@source": "node1030931", "@target": "node1030935"}}, "node1030932": {"edge1030933": {"@length": 0.1601702184434366, "@source": "node1030932", "@target": "node1030933"}, "edge1030934": {"@length": 0.1771576486116913, "@source": "node1030932", "@target": "node1030934"}}, "node1030935": {"edge1030936": {"@length": 0.010829577713934974, "@source": "node1030935", "@target": "node1030936"}, "edge1030979": {"@length": 0.011954136687717637, "@source": "node1030935", "@target": "node1030979"}}, "node1030936": {"edge1030937": {"@length": 0.013855952306092184, "@source": "node1030936", "@target": "node1030937"}, "edge1030956": {"@length": 0.028833851425301038, "@source": "node1030936", "@target": "node1030956"}}, "node1030937": {"edge1030938": {"@length": 0.08578093043756926, "@source": "node1030937", "@target": "node1030938"}, "edge1030939": {"@length": 0.022786665686867713, "@source": "node1030937", "@target": "node1030939"}}, "node1030939": {"edge1030940": {"@length": 0.006276107111818474, "@source": "node1030939", "@target": "node1030940"}, "edge1030953": {"@length": 0.034545353220955866, "@source": "node1030939", "@target": "node1030953"}}, "node1030940": {"edge1030941": {"@length": 0.06205839979779956, "@source": "node1030940", "@target": "node1030941"}, "edge1030942": {"@length": 0.030702642437034883, "@source": "node1030940", "@target": "node1030942"}}, "node1030942": {"edge1030943": {"@length": 0.010917313518917643, "@source": "node1030942", "@target": "node1030943"}, "edge1030952": {"@length": 0.029979953518097846, "@source": "node1030942", "@target": "node1030952"}}, "node1030943": {"edge1030944": {"@length": 0.005857590870510743, "@source": "node1030943", "@target": "node1030944"}, "edge1030947": {"@length": 0.011289955810852237, "@source": "node1030943", "@target": "node1030947"}}, "node1030944": {"edge1030945": {"@length": 0.015216697440747995, "@source": "node1030944", "@target": "node1030945"}, "edge1030946": {"@length": 0.014236263550675893, "@source": "node1030944", "@target": "node1030946"}}, "node1030947": {"edge1030948": {"@length": 0.001409292762436648, "@source": "node1030947", "@target": "node1030948"}, "edge1030951": {"@length": 0.0022950488531409408, "@source": "node1030947", "@target": "node1030951"}}, "node1030948": {"edge1030949": {"@length": 0.002796975843584293, "@source": "node1030948", "@target": "node1030949"}, "edge1030950": {"@length": 0.004173101231266463, "@source": "node1030948", "@target": "node1030950"}}, "node1030953": {"edge1030954": {"@length": 0.014856052965244115, "@source": "node1030953", "@target": "node1030954"}, "edge1030955": {"@length": 0.015520058457176189, "@source": "node1030953", "@target": "node1030955"}}, "node1030956": {"edge1030957": {"@length": 0.019404227186534367, "@source": "node1030956", "@target": "node1030957"}, "edge1030966": {"@length": 0.03401731669556711, "@source": "node1030956", "@target": "node1030966"}}, "node1030957": {"edge1030958": {"@length": 0.006546772351309613, "@source": "node1030957", "@target": "node1030958"}, "edge1030963": {"@length": 0.027947522944115538, "@source": "node1030957", "@target": "node1030963"}}, "node1030958": {"edge1030959": {"@length": 0.025407627418578174, "@source": "node1030958", "@target": "node1030959"}, "edge1030962": {"@length": 0.06306737276293854, "@source": "node1030958", "@target": "node1030962"}}, "node1030959": {"edge1030960": {"@length": 0.039632070624864624, "@source": "node1030959", "@target": "node1030960"}, "edge1030961": {"@length": 0.039315261719498285, "@source": "node1030959", "@target": "node1030961"}}, "node1030963": {"edge1030964": {"@length": 0.03214653277242557, "@source": "node1030963", "@target": "node1030964"}, "edge1030965": {"@length": 0.011246262477811686, "@source": "node1030963", "@target": "node1030965"}}, "node1030966": {"edge1030967": {"@length": 0.0299009282551881, "@source": "node1030966", "@target": "node1030967"}, "edge1030968": {"@length": 0.005141188507385083, "@source": "node1030966", "@target": "node1030968"}}, "node1030968": {"edge1030969": {"@length": 0.03877023946472699, "@source": "node1030968", "@target": "node1030969"}, "edge1030978": {"@length": 0.05234896652135776, "@source": "node1030968", "@target": "node1030978"}}, "node1030969": {"edge1030970": {"@length": 0.006814082359044682, "@source": "node1030969", "@target": "node1030970"}, "edge1030977": {"@length": 0.014395884946385606, "@source": "node1030969", "@target": "node1030977"}}, "node1030970": {"edge1030971": {"@length": 0.023911998365589993, "@source": "node1030970", "@target": "node1030971"}, "edge1030972": {"@length": 0.004006443122906378, "@source": "node1030970", "@target": "node1030972"}}, "node1030972": {"edge1030973": {"@length": 0.0033753625397645592, "@source": "node1030972", "@target": "node1030973"}, "edge1030976": {"@length": 0.013089301554771199, "@source": "node1030972", "@target": "node1030976"}}, "node1030973": {"edge1030974": {"@length": 0.012625161876878843, "@source": "node1030973", "@target": "node1030974"}, "edge1030975": {"@length": 0.022732828187911086, "@source": "node1030973", "@target": "node1030975"}}, "node1030979": {"edge1030980": {"@length": 0.024276024347598096, "@source": "node1030979", "@target": "node1030980"}, "edge1031044": {"@length": 0.009212202028464567, "@source": "node1030979", "@target": "node1031044"}}, "node1030980": {"edge1030981": {"@length": 0.009005220463943947, "@source": "node1030980", "@target": "node1030981"}, "edge1031011": {"@length": 0.006449530501465711, "@source": "node1030980", "@target": "node1031011"}}, "node1030981": {"edge1030982": {"@length": 0.01009056115785023, "@source": "node1030981", "@target": "node1030982"}, "edge1031000": {"@length": 0.006929257725506205, "@source": "node1030981", "@target": "node1031000"}}, "node1030982": {"edge1030983": {"@length": 0.0049997494837313305, "@source": "node1030982", "@target": "node1030983"}, "edge1030989": {"@length": 0.0066669860805381315, "@source": "node1030982", "@target": "node1030989"}}, "node1030983": {"edge1030984": {"@length": 0.01755230208755773, "@source": "node1030983", "@target": "node1030984"}, "edge1030988": {"@length": 0.039778657765096814, "@source": "node1030983", "@target": "node1030988"}}, "node1030984": {"edge1030985": {"@length": 0.013218883328222159, "@source": "node1030984", "@target": "node1030985"}, "edge1030986": {"@length": 0.022922895270579252, "@source": "node1030984", "@target": "node1030986"}, "edge1030987": {"@length": 0.025248958684752937, "@source": "node1030984", "@target": "node1030987"}}, "node1030989": {"edge1030990": {"@length": 0.006968670260107709, "@source": "node1030989", "@target": "node1030990"}, "edge1030997": {"@length": 0.004953857464609787, "@source": "node1030989", "@target": "node1030997"}}, "node1030990": {"edge1030991": {"@length": 0.019270129799360936, "@source": "node1030990", "@target": "node1030991"}, "edge1030996": {"@length": 0.012391321480379441, "@source": "node1030990", "@target": "node1030996"}}, "node1030991": {"edge1030992": {"@length": 0.0018753587867460786, "@source": "node1030991", "@target": "node1030992"}, "edge1030995": {"@length": 0.005224618490925481, "@source": "node1030991", "@target": "node1030995"}}, "node1030992": {"edge1030993": {"@length": 0.003632785687365997, "@source": "node1030992", "@target": "node1030993"}, "edge1030994": {"@length": 0.010573160864344427, "@source": "node1030992", "@target": "node1030994"}}, "node1030997": {"edge1030998": {"@length": 0.028688646673660056, "@source": "node1030997", "@target": "node1030998"}, "edge1030999": {"@length": 0.025421630337016582, "@source": "node1030997", "@target": "node1030999"}}, "node1031000": {"edge1031001": {"@length": 0.009736403499786356, "@source": "node1031000", "@target": "node1031001"}, "edge1031010": {"@length": 0.061836749179639244, "@source": "node1031000", "@target": "node1031010"}}, "node1031001": {"edge1031002": {"@length": 0.028706789776357045, "@source": "node1031001", "@target": "node1031002"}, "edge1031003": {"@length": 0.0024891070372192042, "@source": "node1031001", "@target": "node1031003"}, "edge1031009": {"@length": 0.03548487722883609, "@source": "node1031001", "@target": "node1031009"}}, "node1031003": {"edge1031004": {"@length": 0.027081479487636298, "@source": "node1031003", "@target": "node1031004"}, "edge1031005": {"@length": 0.002596016111128266, "@source": "node1031003", "@target": "node1031005"}}, "node1031005": {"edge1031006": {"@length": 0.024137732081126462, "@source": "node1031005", "@target": "node1031006"}, "edge1031007": {"@length": 0.025078030694555803, "@source": "node1031005", "@target": "node1031007"}, "edge1031008": {"@length": 0.02641706523558407, "@source": "node1031005", "@target": "node1031008"}}, "node1031011": {"edge1031012": {"@length": 0.006115751148831838, "@source": "node1031011", "@target": "node1031012"}, "edge1031035": {"@length": 0.00995414198801639, "@source": "node1031011", "@target": "node1031035"}}, "node1031012": {"edge1031013": {"@length": 0.007836485481047789, "@source": "node1031012", "@target": "node1031013"}, "edge1031026": {"@length": 0.022389625863893897, "@source": "node1031012", "@target": "node1031026"}}, "node1031013": {"edge1031014": {"@length": 0.0066334056566814265, "@source": "node1031013", "@target": "node1031014"}, "edge1031017": {"@length": 0.019983972223714258, "@source": "node1031013", "@target": "node1031017"}}, "node1031014": {"edge1031015": {"@length": 0.0575027770457706, "@source": "node1031014", "@target": "node1031015"}, "edge1031016": {"@length": 0.04047030213330123, "@source": "node1031014", "@target": "node1031016"}}, "node1031017": {"edge1031018": {"@length": 0.02279273642117141, "@source": "node1031017", "@target": "node1031018"}, "edge1031021": {"@length": 0.017417047225591148, "@source": "node1031017", "@target": "node1031021"}}, "node1031018": {"edge1031019": {"@length": 0.0008621498802759697, "@source": "node1031018", "@target": "node1031019"}, "edge1031020": {"@length": 0.0003507044514708957, "@source": "node1031018", "@target": "node1031020"}}, "node1031021": {"edge1031022": {"@length": 0.021012911832433645, "@source": "node1031021", "@target": "node1031022"}, "edge1031023": {"@length": 0.005604426834400961, "@source": "node1031021", "@target": "node1031023"}}, "node1031023": {"edge1031024": {"@length": 0.013739851955578253, "@source": "node1031023", "@target": "node1031024"}, "edge1031025": {"@length": 0.008623823168223993, "@source": "node1031023", "@target": "node1031025"}}, "node1031026": {"edge1031027": {"@length": 0.02767033357035148, "@source": "node1031026", "@target": "node1031027"}, "edge1031028": {"@length": 0.008081619595296269, "@source": "node1031026", "@target": "node1031028"}}, "node1031028": {"edge1031029": {"@length": 0.016052835300506052, "@source": "node1031028", "@target": "node1031029"}, "edge1031030": {"@length": 0.005793861578569537, "@source": "node1031028", "@target": "node1031030"}}, "node1031030": {"edge1031031": {"@length": 0.006316724467635981, "@source": "node1031030", "@target": "node1031031"}, "edge1031034": {"@length": 0.01230172441087135, "@source": "node1031030", "@target": "node1031034"}}, "node1031031": {"edge1031032": {"@length": 0.008671181628670477, "@source": "node1031031", "@target": "node1031032"}, "edge1031033": {"@length": 0.025587668759530724, "@source": "node1031031", "@target": "node1031033"}}, "node1031035": {"edge1031036": {"@length": 0.017690492562300722, "@source": "node1031035", "@target": "node1031036"}, "edge1031041": {"@length": 0.03326472054559093, "@source": "node1031035", "@target": "node1031041"}}, "node1031036": {"edge1031037": {"@length": 0.015405895673992628, "@source": "node1031036", "@target": "node1031037"}, "edge1031038": {"@length": 0.006665134883435134, "@source": "node1031036", "@target": "node1031038"}}, "node1031038": {"edge1031039": {"@length": 0.03762318903390291, "@source": "node1031038", "@target": "node1031039"}, "edge1031040": {"@length": 0.020628558270411712, "@source": "node1031038", "@target": "node1031040"}}, "node1031041": {"edge1031042": {"@length": 0.012034241352236241, "@source": "node1031041", "@target": "node1031042"}, "edge1031043": {"@length": 0.00887985003780739, "@source": "node1031041", "@target": "node1031043"}}, "node1031044": {"edge1031045": {"@length": 0.028189285982403417, "@source": "node1031044", "@target": "node1031045"}, "edge1031059": {"@length": 0.009169224038213075, "@source": "node1031044", "@target": "node1031059"}}, "node1031045": {"edge1031046": {"@length": 0.01564930935160501, "@source": "node1031045", "@target": "node1031046"}, "edge1031053": {"@length": 0.007307122563602317, "@source": "node1031045", "@target": "node1031053"}, "edge1031058": {"@length": 0.038069893614919165, "@source": "node1031045", "@target": "node1031058"}}, "node1031046": {"edge1031047": {"@length": 0.013746982715542685, "@source": "node1031046", "@target": "node1031047"}, "edge1031048": {"@length": 0.0033089228407629234, "@source": "node1031046", "@target": "node1031048"}}, "node1031048": {"edge1031049": {"@length": 0.01173097820405715, "@source": "node1031048", "@target": "node1031049"}, "edge1031052": {"@length": 0.017839761865722295, "@source": "node1031048", "@target": "node1031052"}}, "node1031049": {"edge1031050": {"@length": 0.0024667271245170375, "@source": "node1031049", "@target": "node1031050"}, "edge1031051": {"@length": 0.003791391261792787, "@source": "node1031049", "@target": "node1031051"}}, "node1031053": {"edge1031054": {"@length": 0.02825007730556474, "@source": "node1031053", "@target": "node1031054"}, "edge1031057": {"@length": 0.04917288242304767, "@source": "node1031053", "@target": "node1031057"}}, "node1031054": {"edge1031055": {"@length": 0.006516928613001238, "@source": "node1031054", "@target": "node1031055"}, "edge1031056": {"@length": 0.004171723747522532, "@source": "node1031054", "@target": "node1031056"}}, "node1031059": {"edge1031060": {"@length": 0.055023167676141516, "@source": "node1031059", "@target": "node1031060"}, "edge1031063": {"@length": 0.009981133433262762, "@source": "node1031059", "@target": "node1031063"}}, "node1031060": {"edge1031061": {"@length": 0.04426687830459611, "@source": "node1031060", "@target": "node1031061"}, "edge1031062": {"@length": 0.03243431389620827, "@source": "node1031060", "@target": "node1031062"}}, "node1031063": {"edge1031064": {"@length": 0.008918591431087308, "@source": "node1031063", "@target": "node1031064"}, "edge1031087": {"@length": 0.027454369336248688, "@source": "node1031063", "@target": "node1031087"}}, "node1031064": {"edge1031065": {"@length": 0.0085921517745816, "@source": "node1031064", "@target": "node1031065"}, "edge1031084": {"@length": 0.01948024650041094, "@source": "node1031064", "@target": "node1031084"}}, "node1031065": {"edge1031066": {"@length": 0.022066261892616193, "@source": "node1031065", "@target": "node1031066"}, "edge1031075": {"@length": 0.014617922106462664, "@source": "node1031065", "@target": "node1031075"}}, "node1031066": {"edge1031067": {"@length": 0.009149327971317484, "@source": "node1031066", "@target": "node1031067"}, "edge1031074": {"@length": 0.02229085331340047, "@source": "node1031066", "@target": "node1031074"}}, "node1031067": {"edge1031068": {"@length": 0.004872849373553423, "@source": "node1031067", "@target": "node1031068"}, "edge1031073": {"@length": 0.03237577986927681, "@source": "node1031067", "@target": "node1031073"}}, "node1031068": {"edge1031069": {"@length": 0.0037247595788527654, "@source": "node1031068", "@target": "node1031069"}, "edge1031072": {"@length": 0.02957941193614777, "@source": "node1031068", "@target": "node1031072"}}, "node1031069": {"edge1031070": {"@length": 0.03336233418419601, "@source": "node1031069", "@target": "node1031070"}, "edge1031071": {"@length": 0.02043278192678452, "@source": "node1031069", "@target": "node1031071"}}, "node1031075": {"edge1031076": {"@length": 0.012742622364281558, "@source": "node1031075", "@target": "node1031076"}, "edge1031081": {"@length": 0.005210731345197228, "@source": "node1031075", "@target": "node1031081"}}, "node1031076": {"edge1031077": {"@length": 0.01752753781806904, "@source": "node1031076", "@target": "node1031077"}, "edge1031080": {"@length": 0.014686134102407461, "@source": "node1031076", "@target": "node1031080"}}, "node1031077": {"edge1031078": {"@length": 0.002933265237344801, "@source": "node1031077", "@target": "node1031078"}, "edge1031079": {"@length": 0.00802501902320335, "@source": "node1031077", "@target": "node1031079"}}, "node1031081": {"edge1031082": {"@length": 0.03922732950233837, "@source": "node1031081", "@target": "node1031082"}, "edge1031083": {"@length": 0.041802555050146795, "@source": "node1031081", "@target": "node1031083"}}, "node1031084": {"edge1031085": {"@length": 0.051725073462172755, "@source": "node1031084", "@target": "node1031085"}, "edge1031086": {"@length": 0.05474982871022449, "@source": "node1031084", "@target": "node1031086"}}, "node1031087": {"edge1031088": {"@length": 0.017207410186748193, "@source": "node1031087", "@target": "node1031088"}, "edge1031091": {"@length": 0.010982052088710378, "@source": "node1031087", "@target": "node1031091"}}, "node1031088": {"edge1031089": {"@length": 0.016443303409686166, "@source": "node1031088", "@target": "node1031089"}, "edge1031090": {"@length": 0.0361262752014988, "@source": "node1031088", "@target": "node1031090"}}, "node1031091": {"edge1031092": {"@length": 0.026897086022732136, "@source": "node1031091", "@target": "node1031092"}, "edge1031093": {"@length": 0.018739358503483683, "@source": "node1031091", "@target": "node1031093"}}}, "nodeById": {"node1030931": {"@root": true}, "node1030932": {}, "node1030933": {"@otu": "otu386375"}, "node1030934": {"@otu": "otu386376"}, "node1030935": {}, "node1030936": {}, "node1030937": {}, "node1030938": {"@otu": "otu386377"}, "node1030939": {}, "node1030940": {}, "node1030941": {"@otu": "otu386378"}, "node1030942": {}, "node1030943": {}, "node1030944": {}, "node1030945": {"@otu": "otu386379"}, "node1030946": {"@otu": "otu386380"}, "node1030947": {}, "node1030948": {}, "node1030949": {"@otu": "otu386381"}, "node1030950": {"@otu": "otu386382"}, "node1030951": {"@otu": "otu386383"}, "node1030952": {"@otu": "otu386384"}, "node1030953": {}, "node1030954": {"@otu": "otu386385"}, "node1030955": {"@otu": "otu386386"}, "node1030956": {}, "node1030957": {}, "node1030958": {}, "node1030959": {}, "node1030960": {"@otu": "otu386387"}, "node1030961": {"@otu": "otu386388"}, "node1030962": {"@otu": "otu386389"}, "node1030963": {}, "node1030964": {"@otu": "otu386390"}, "node1030965": {"@otu": "otu386391"}, "node1030966": {}, "node1030967": {"@otu": "otu386392"}, "node1030968": {}, "node1030969": {}, "node1030970": {}, "node1030971": {"@otu": "otu386393"}, "node1030972": {}, "node1030973": {}, "node1030974": {"@otu": "otu386394"}, "node1030975": {"@otu": "otu386395"}, "node1030976": {"@otu": "otu386396"}, "node1030977": {"@otu": "otu386397"}, "node1030978": {"@otu": "otu386398"}, "node1030979": {}, "node1030980": {}, "node1030981": {}, "node1030982": {}, "node1030983": {}, "node1030984": {}, "node1030985": {"@otu": "otu386399"}, "node1030986": {"@otu": "otu386400"}, "node1030987": {"@otu": "otu386401"}, "node1030988": {"@otu": "otu386402"}, "node1030989": {}, "node1030990": {}, "node1030991": {}, "node1030992": {}, "node1030993": {"@otu": "otu386403"}, "node1030994": {"@otu": "otu386404"}, "node1030995": {"@otu": "otu386405"}, "node1030996": {"@otu": "otu386406"}, "node1030997": {}, "node1030998": {"@otu": "otu386407"}, "node1030999": {"@otu": "otu386408"}, "node1031000": {}, "node1031001": {}, "node1031002": {"@otu": "otu386409"}, "node1031003": {}, "node1031004": {"@otu": "otu386410"}, "node1031005": {}, "node1031006": {"@otu": "otu386411"}, "node1031007": {"@otu": "otu386412"}, "node1031008": {"@otu": "otu386413"}, "node1031009": {"@otu": "otu386414"}, "node1031010": {"@otu": "otu386415"}, "node1031011": {}, "node1031012": {}, "node1031013": {}, "node1031014": {}, "node1031015": {"@otu": "otu386416"}, "node1031016": {"@otu": "otu386417"}, "node1031017": {}, "node1031018": {}, "node1031019": {"@otu": "otu386418"}, "node1031020": {"@otu": "otu386419"}, "node1031021": {}, "node1031022": {"@otu": "otu386420"}, "node1031023": {}, "node1031024": {"@otu": "otu386421"}, "node1031025": {"@otu": "otu386422"}, "node1031026": {}, "node1031027": {"@otu": "otu386423"}, "node1031028": {}, "node1031029": {"@otu": "otu386424"}, "node1031030": {}, "node1031031": {}, "node1031032": {"@otu": "otu386425"}, "node1031033": {"@otu": "otu386426"}, "node1031034": {"@otu": "otu386427"}, "node1031035": {}, "node1031036": {}, "node1031037": {"@otu": "otu386428"}, "node1031038": {}, "node1031039": {"@otu": "otu386429"}, "node1031040": {"@otu": "otu386430"}, "node1031041": {}, "node1031042": {"@otu": "otu386431"}, "node1031043": {"@otu": "otu386432"}, "node1031044": {}, "node1031045": {}, "node1031046": {}, "node1031047": {"@otu": "otu386433"}, "node1031048": {}, "node1031049": {}, "node1031050": {"@otu": "otu386434"}, "node1031051": {"@otu": "otu386435"}, "node1031052": {"@otu": "otu386436"}, "node1031053": {}, "node1031054": {}, "node1031055": {"@otu": "otu386437"}, "node1031056": {"@otu": "otu386438"}, "node1031057": {"@otu": "otu386439"}, "node1031058": {"@otu": "otu386440"}, "node1031059": {}, "node1031060": {}, "node1031061": {"@otu": "otu386441"}, "node1031062": {"@otu": "otu386442"}, "node1031063": {}, "node1031064": {}, "node1031065": {}, "node1031066": {}, "node1031067": {}, "node1031068": {}, "node1031069": {}, "node1031070": {"@otu": "otu386443"}, "node1031071": {"@otu": "otu386444"}, "node1031072": {"@otu": "otu386445"}, "node1031073": {"@otu": "otu386446"}, "node1031074": {"@otu": "otu386447"}, "node1031075": {}, "node1031076": {}, "node1031077": {}, "node1031078": {"@otu": "otu386448"}, "node1031079": {"@otu": "otu386449"}, "node1031080": {"@otu": "otu386450"}, "node1031081": {}, "node1031082": {"@otu": "otu386451"}, "node1031083": {"@otu": "otu386452"}, "node1031084": {}, "node1031085": {"@otu": "otu386453"}, "node1031086": {"@otu": "otu386454"}, "node1031087": {}, "node1031088": {}, "node1031089": {"@otu": "otu386455"}, "node1031090": {"@otu": "otu386456"}, "node1031091": {}, "node1031092": {"@otu": "otu386457"}, "node1031093": {"@otu": "otu386458"}}}}}}}}, "branch2sha": {"master": "19ec8a2da4b35c55075f155f9fb4d01281774fe5"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "e48923e55848efbbc99e898c7b500e4774d32cfa", "author_name": "Joseph W. Brown", "author_email": "ANONYMOUS", "date": "Tue, 1 Jul 2014 17:29:32 +0100", "date_ISO_8601": "2014-07-01 17:29:32 +0100", "relative_date": "12 years ago", "message_subject": "fix tree name", "message_body": "(Update Study #pg_2599 via OpenTree API)"}, {"id": "d33fb39501605772a074dffc82affa5344ea9a94", "author_name": "Mark T. Holder", "author_email": "mtholder@gmail.com", "date": "Wed, 11 Jun 2014 22:18:34 -0500", "date_ISO_8601": "2014-06-11 22:18:34 -0500", "relative_date": "12 years ago", "message_subject": "corrected study ids"}, {"id": "f8a738aeda20a73750847484e110a85c7a3e0a12", "author_name": "Mark T. Holder", "author_email": "mtholder@gmail.com", "date": "Tue, 10 Jun 2014 23:36:42 -0500", "date_ISO_8601": "2014-06-10 23:36:42 -0500", "relative_date": "12 years ago", "message_subject": "Migrating info from gcmdr to nexsons", "message_body": "using peyotl d69c8b180fce7703c7203a0b51712eab57e2988c\ndev/decorate_pg_studies_with_gcmdr_info.py\nto set:\n  ^ot:candidateTreeForSynthesis\n  ^ot:specifiedRoot, and\n  ^ot:unrootedTree\nproperties based on the use of the trees for synthesis study\nlists in gcmdr commit 35bf307e72bed4f59724762dde4a12965abcea92"}, {"id": "593d6fbab385716dc0a12f3fc95133e8b7479b37", "author_name": "Mark T. Holder", "author_email": "mtholder@gmail.com", "date": "Tue, 29 Apr 2014 20:05:19 -0500", "date_ISO_8601": "2014-04-29 20:05:19 -0500", "relative_date": "12 years ago", "message_subject": "initial commit with phylografter files from 29 Apr, 2014"}]}