{"sha": "c33806c9ee11db205ee8c02a42e31b1c3128e299", "data": {"nexml": {"@generator": "Phylografter nexml-json exporter", "@id": "study", "@nexml2json": "0.0.0", "@nexmljson": "http://purl.org/opentree/nexson", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "nex": "http://www.nexml.org/2009", "ot": "http://purl.org/opentree-terms#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "otus": {"@id": "otus2865", "otu": [{"@id": "otu426658", "@about": "#otu426658", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris MICH1"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426659", "@about": "#otu426659", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris MICH2"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426660", "@about": "#otu426660", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris DF"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426661", "@about": "#otu426661", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris QRO1"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426662", "@about": "#otu426662", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris QRO2"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426663", "@about": "#otu426663", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris ZAC2"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426664", "@about": "#otu426664", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris GTO"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426665", "@about": "#otu426665", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus latirostris ZAC1"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84795}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus latirostris"}]}, {"@id": "otu426666", "@about": "#otu426666", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus doubledayi GRO1"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84793}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus doubledayi"}]}, {"@id": "otu426667", "@about": "#otu426667", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus doubledayi GRO2"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84793}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus doubledayi"}]}, {"@id": "otu426668", "@about": "#otu426668", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus doubledayi GRO3"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84793}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus doubledayi"}]}, {"@id": "otu426669", "@about": "#otu426669", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus doubledayi GRO4"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84793}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus doubledayi"}]}, {"@id": "otu426670", "@about": "#otu426670", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus doubledayi GRO5"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84793}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus doubledayi"}]}, {"@id": "otu426671", "@about": "#otu426671", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus sordidus OAX1"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 606420}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus sordidus"}]}, {"@id": "otu426672", "@about": "#otu426672", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus sordidus PUE"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 606420}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus sordidus"}]}, {"@id": "otu426673", "@about": "#otu426673", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus sordidus OAX2"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 606420}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus sordidus"}]}, {"@id": "otu426674", "@about": "#otu426674", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cynanthus sordidus GRO"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 606420}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cynanthus sordidus"}]}, {"@id": "otu426675", "@about": "#otu426675", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Cyanophaia bicolor"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 381837}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Cyanophaia bicolor"}]}, {"@id": "otu426676", "@about": "#otu426676", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Hylocharis leucotis"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 699784}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Hylocharis leucotis"}]}, {"@id": "otu426677", "@about": "#otu426677", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Amazilia berylina"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84792}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Amazilia beryllina"}]}, {"@id": "otu426678", "@about": "#otu426678", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:originalLabel", "@datatype": "xsd:string", "$": "Phaethornis mexicanus"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottId", "@datatype": "xsd:int", "$": 84790}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:ottTaxonName", "@datatype": "xsd:string", "$": "Phaethornis longirostris mexicanus"}]}], "@about": "#otus2865"}, "trees": {"@otus": "otus2865", "@id": "trees2865", "tree": [{"@label": "Fig. 2", "@xsi:type": "nex:FloatTree", "node": [{"@root": true, "@id": "node1160878", "@about": "#node1160878"}, {"@id": "node1160879", "@about": "#node1160879"}, {"@id": "node1160880", "@about": "#node1160880"}, {"@id": "node1160881", "@about": "#node1160881"}, {"@id": "node1160882", "@about": "#node1160882"}, {"@id": "node1160883", "@about": "#node1160883"}, {"@id": "node1160884", "@about": "#node1160884"}, {"@id": "node1160885", "@about": "#node1160885"}, {"@otu": "otu426658", "@id": "node1160886", "@about": "#node1160886", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426659", "@id": "node1160887", "@about": "#node1160887", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426660", "@id": "node1160888", "@about": "#node1160888", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426661", "@id": "node1160889", "@about": "#node1160889", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426662", "@id": "node1160890", "@about": "#node1160890", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426663", "@id": "node1160891", "@about": "#node1160891", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426664", "@id": "node1160892", "@about": "#node1160892", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426665", "@id": "node1160893", "@about": "#node1160893", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node1160894", "@about": "#node1160894"}, {"@id": "node1160895", "@about": "#node1160895"}, {"@otu": "otu426666", "@id": "node1160896", "@about": "#node1160896", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426667", "@id": "node1160897", "@about": "#node1160897", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426668", "@id": "node1160898", "@about": "#node1160898", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426669", "@id": "node1160899", "@about": "#node1160899", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426670", "@id": "node1160900", "@about": "#node1160900", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node1160901", "@about": "#node1160901"}, {"@otu": "otu426671", "@id": "node1160902", "@about": "#node1160902", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isTaxonExemplar", "@datatype": "xsd:boolean", "$": true}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426672", "@id": "node1160903", "@about": "#node1160903", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isTaxonExemplar", "@datatype": "xsd:boolean", "$": false}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426673", "@id": "node1160904", "@about": "#node1160904", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isTaxonExemplar", "@datatype": "xsd:boolean", "$": false}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426674", "@id": "node1160905", "@about": "#node1160905", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isTaxonExemplar", "@datatype": "xsd:boolean", "$": false}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426675", "@id": "node1160906", "@about": "#node1160906", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426676", "@id": "node1160907", "@about": "#node1160907", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@id": "node1160908", "@about": "#node1160908"}, {"@otu": "otu426677", "@id": "node1160909", "@about": "#node1160909", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}, {"@otu": "otu426678", "@id": "node1160910", "@about": "#node1160910", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:isLeaf", "@datatype": "xsd:boolean", "$": true}]}], "edge": [{"@source": "node1160878", "@target": "node1160879", "@id": "edge1160879", "@about": "#edge1160879"}, {"@source": "node1160879", "@target": "node1160880", "@id": "edge1160880", "@about": "#edge1160880"}, {"@source": "node1160880", "@target": "node1160881", "@id": "edge1160881", "@about": "#edge1160881"}, {"@source": "node1160881", "@target": "node1160882", "@id": "edge1160882", "@about": "#edge1160882"}, {"@source": "node1160882", "@target": "node1160883", "@id": "edge1160883", "@about": "#edge1160883"}, {"@source": "node1160883", "@target": "node1160884", "@id": "edge1160884", "@about": "#edge1160884"}, {"@source": "node1160884", "@target": "node1160885", "@id": "edge1160885", "@about": "#edge1160885"}, {"@source": "node1160885", "@target": "node1160886", "@id": "edge1160886", "@about": "#edge1160886"}, {"@source": "node1160885", "@target": "node1160887", "@id": "edge1160887", "@about": "#edge1160887"}, {"@source": "node1160884", "@target": "node1160888", "@id": "edge1160888", "@about": "#edge1160888"}, {"@source": "node1160884", "@target": "node1160889", "@id": "edge1160889", "@about": "#edge1160889"}, {"@source": "node1160884", "@target": "node1160890", "@id": "edge1160890", "@about": "#edge1160890"}, {"@source": "node1160884", "@target": "node1160891", "@id": "edge1160891", "@about": "#edge1160891"}, {"@source": "node1160883", "@target": "node1160892", "@id": "edge1160892", "@about": "#edge1160892"}, {"@source": "node1160883", "@target": "node1160893", "@id": "edge1160893", "@about": "#edge1160893"}, {"@source": "node1160882", "@target": "node1160894", "@id": "edge1160894", "@about": "#edge1160894"}, {"@source": "node1160894", "@target": "node1160895", "@id": "edge1160895", "@about": "#edge1160895"}, {"@source": "node1160895", "@target": "node1160896", "@id": "edge1160896", "@about": "#edge1160896"}, {"@source": "node1160895", "@target": "node1160897", "@id": "edge1160897", "@about": "#edge1160897"}, {"@source": "node1160895", "@target": "node1160898", "@id": "edge1160898", "@about": "#edge1160898"}, {"@source": "node1160895", "@target": "node1160899", "@id": "edge1160899", "@about": "#edge1160899"}, {"@source": "node1160894", "@target": "node1160900", "@id": "edge1160900", "@about": "#edge1160900"}, {"@source": "node1160881", "@target": "node1160901", "@id": "edge1160901", "@about": "#edge1160901"}, {"@source": "node1160901", "@target": "node1160902", "@id": "edge1160902", "@about": "#edge1160902"}, {"@source": "node1160901", "@target": "node1160903", "@id": "edge1160903", "@about": "#edge1160903"}, {"@source": "node1160901", "@target": "node1160904", "@id": "edge1160904", "@about": "#edge1160904"}, {"@source": "node1160901", "@target": "node1160905", "@id": "edge1160905", "@about": "#edge1160905"}, {"@source": "node1160880", "@target": "node1160906", "@id": "edge1160906", "@about": "#edge1160906"}, {"@source": "node1160879", "@target": "node1160907", "@id": "edge1160907", "@about": "#edge1160907"}, {"@source": "node1160878", "@target": "node1160908", "@id": "edge1160908", "@about": "#edge1160908"}, {"@source": "node1160908", "@target": "node1160909", "@id": "edge1160909", "@about": "#edge1160909"}, {"@source": "node1160908", "@target": "node1160910", "@id": "edge1160910", "@about": "#edge1160910"}], "@id": "tree6654", "@about": "#tree6654", "meta": [{"@xsi:type": "nex:LiteralMeta", "@property": "ot:branchLengthDescription", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:branchLengthTimeUnit", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatedType", "@datatype": "xsd:string", "$": "Bayesian inference "}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:inGroupClade", "@datatype": "xsd:string", "$": "node1160881"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:outGroupEdge", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:specifiedRoot", "@datatype": "xsd:string", "$": "node1160878"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:unrootedTree", "@datatype": "xsd:boolean", "$": false}]}], "@about": "#trees2865"}, "@about": "#study", "meta": [{"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"}]}, "@about": "#peyotl-validator"}, {"@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", "@about": "#opentree-curation-webapp"}], "@xsi:type": "nex:LiteralMeta", "@property": "ot:agents"}, {"annotation": [{"@dateCreated": "2014-07-20T17:15:02.070Z", "@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"}}}], "@about": "#otu-mapping-hints"}, {"@dateCreated": "2014-07-20T17:15:02.070Z", "@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"}}}], "@about": "#supporting-files-metadata"}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@code": "UNRECOGNIZED_KEY", "data": ["^ot:isTaxonExemplar"], "refersTo": {"@top": "trees", "@idref": "node1160902", "@treesID": "trees2865", "@treeID": "tree6654", "@nodeID": "node1160902"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:isTaxonExemplar"], "refersTo": {"@top": "trees", "@idref": "node1160903", "@treesID": "trees2865", "@treeID": "tree6654", "@nodeID": "node1160903"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:isTaxonExemplar"], "refersTo": {"@top": "trees", "@idref": "node1160904", "@treesID": "trees2865", "@treeID": "tree6654", "@nodeID": "node1160904"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:isTaxonExemplar"], "refersTo": {"@top": "trees", "@idref": "node1160905", "@treesID": "trees2865", "@treeID": "tree6654", "@nodeID": "node1160905"}, "@severity": "WARNING"}, {"@code": "MULTIPLE_TIPS_MAPPED_TO_OTT_ID", "data": ["otu426658", "otu426659", "otu426660", "otu426661", "otu426662", "otu426663", "otu426664", "otu426665"], "refersTo": {"@top": "otus", "@idref": "otus2865", "@otusID": "otus2865"}, "@severity": "WARNING"}, {"@code": "MULTIPLE_TIPS_MAPPED_TO_OTT_ID", "data": ["otu426666", "otu426667", "otu426668", "otu426669", "otu426670"], "refersTo": {"@top": "otus", "@idref": "otus2865", "@otusID": "otus2865"}, "@severity": "WARNING"}, {"@code": "MULTIPLE_TIPS_MAPPED_TO_OTT_ID", "data": ["otu426671", "otu426672", "otu426673", "otu426674"], "refersTo": {"@top": "otus", "@idref": "otus2865", "@otusID": "otus2865"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:comment"], "refersTo": {"@top": "nexml", "@idref": "study"}, "@severity": "WARNING"}, {"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:branchLengthMode"], "refersTo": {"@top": "trees", "@idref": "tree6654", "@treesID": "trees2865", "@treeID": "tree6654"}, "@severity": "WARNING"}], "@about": "#peyotl-validator-event"}], "@xsi:type": "nex:LiteralMeta", "@property": "ot:annotationEvents"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:candidateTreeForSynthesis", "@datatype": "xsd:string", "$": "tree6654"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:comment", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatorName", "@datatype": "xsd:string", "$": "Joseph Brown"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatorName", "@datatype": "xsd:string", "$": "Jonathan A Rees"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatorName", "@datatype": "xsd:string", "$": "Joseph W. Brown"}, {"@href": "", "@xsi:type": "nex:ResourceMeta", "@rel": "ot:dataDeposit"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:focalClade", "@datatype": "xsd:int", "$": 606421}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:focalCladeOTTTaxonName", "@datatype": "xsd:string", "$": "Cynanthus"}, {"message": [], "@xsi:type": "nex:LiteralMeta", "@property": "ot:messages"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:notIntendedForSynthesis", "@datatype": "xsd:boolean", "$": false}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyId", "@datatype": "xsd:string", "$": "pg_2865"}, {"@href": "http://www.mapress.com/zootaxa/2008/f/zt01742p068.pdf", "@xsi:type": "nex:ResourceMeta", "@rel": "ot:studyPublication"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyPublicationReference", "@datatype": "xsd:string", "$": "Garc\u00eda-Deras, Gabriela M., Nandadevi Cort\u00e9s-Rodr\u00edguez, Magali Honey, Adolfo G. Navarro-sig\u00fcenza, Jaime Garc\u00eda-Moreno, Blanca E. Hern\u00e1ndez-Ba\u00f1os. 2008. Phylogenetic relationships within the genus Cynanthus (Aves: Trochilidae), with emphasis on C. doubledayi. Zootaxa 1742: 61-68."}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyYear", "@datatype": "xsd:int", "$": 2008}]}}, "branch2sha": {"master": "c33806c9ee11db205ee8c02a42e31b1c3128e299"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "39a5ac2901d89e9ea57365e3059b5bbf69f7b196", "author_name": "Joseph W. Brown", "author_email": "ANONYMOUS", "date": "Thu, 31 Jul 2014 22:26:58 +0000", "date_ISO_8601": "2014-07-31 22:26:58 +0000", "relative_date": "12 years ago", "message_subject": "tree name/method", "message_body": "(Update Study #pg_2865 via OpenTree API)"}, {"id": "42405b5e773e91475b7d580a8de288d6a86f6b94", "author_name": "Jonathan A Rees", "author_email": "jar398@mumble.net", "date": "Sun, 20 Jul 2014 17:17:15 +0000", "date_ISO_8601": "2014-07-20 17:17:15 +0000", "relative_date": "12 years ago", "message_subject": "Added URL (does not seem to have a DOI, I checked)", "message_body": "(Update Study #pg_2865 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"}]}