{"sha": "c33806c9ee11db205ee8c02a42e31b1c3128e299", "data": {"nexml": {"@generator": "org.nexml.model.impl.DocumentImpl", "@id": "S13189", "@nexml2json": "1.2.1", "@version": "0.9", "@xmlns": {"$": "http://www.nexml.org/2009", "dc": "http://purl.org/dc/elements/1.1/", "dcterms": "http://purl.org/dc/terms/", "nex": "http://www.nexml.org/2009", "prism": "http://prismstandard.org/namespaces/1.2/basic/", "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#", "rdfs": "http://www.w3.org/2000/01/rdf-schema#", "skos": "http://www.w3.org/2004/02/skos/core#", "tb": "http://purl.org/phylo/treebase/2.0/terms#", "xsd": "http://www.w3.org/2001/XMLSchema#", "xsi": "http://www.w3.org/2001/XMLSchema-instance"}, "^dc:contributor": "Sereno P.C.", "^dc:creator": "Sereno P.C.", "^dc:date": "2012-08-15", "^dc:title": "Taxonomy, cranial morphology, and relationships of parrot-beaked dinosaurs.", "^dcterms:bibliographicCitation": "Sereno P.C. 2010. \"Taxonomy, cranial morphology, and relationships of parrot-beaked dinosaurs.\" In: , eds. New Perspectives on Horned Dinosaurs. pp. 21-58. Bloomington, University of Indiana Press.", "^ot:agents": {"agent": [{"@description": "Open Tree NexSON validation", "@id": "peyotl-validator", "@name": "api.opentreeoflife.org/validate", "@url": "https://github.com/OpenTreeOfLife/peyotl", "@version": "0.0.4a", "invocation": {"commandLine": [], "otherProperty": [{"name": "pythonVersion", "value": "2.7.9"}, {"name": "pythonImplementation", "value": "CPython"}]}}, {"@description": "Web-based interface for submitting, editing, and reviewing studies in the Open Tree of Life project.", "@id": "opentree-curation-webapp", "@name": "OpenTree curation webapp", "@url": "https://github.com/OpenTreeOfLife/opentree", "@version": "0.0.0"}]}, "^ot:annotationEvents": {"annotation": [{"@dateCreated": "2018-06-28T00:21:13.446Z", "@description": "Aids for mapping study OTUs to OTT taxa", "@id": "otu-mapping-hints", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "OTU_MAPPING_HINTS", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"searchContext": {"$": "Tetrapods"}, "substitutions": {"substitution": [{"@active": false, "@valid": true, "new": {"$": ""}, "old": {"$": ""}}]}, "useFuzzyMatching": false}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@dateCreated": "2018-06-28T00:21:13.446Z", "@description": "Describes supporting data files for this study", "@id": "supporting-files-metadata", "@passedChecks": true, "@preserve": true, "@wasAssociatedWithAgentId": "opentree-curation-webapp", "message": [{"@code": "SUPPORTING_FILE_INFO", "@humanMessageType": "NONE", "@severity": "INFO", "data": {"@movedToPermanentArchive": false, "files": {"file": []}}, "refersTo": {"@top": {"$": "meta"}}}]}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@code": "UNRECOGNIZED_KEY", "data": ["^dc:contributor", "^dc:creator", "^dc:date", "^dc:title", "^dcterms:bibliographicCitation", "^ot:comment", "^prism:creationDate", "^prism:endingPage", "^prism:modificationDate", "^prism:pageRange", "^prism:publicationDate", "^prism:section", "^prism:startingPage", "^skos:changeNote", "^skos:historyNote", "^tb:identifier.study", "^tb:title.study"], "refersTo": {"@top": "nexml", "@idref": "S13189"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["@label"], "refersTo": {"@top": "trees", "@idref": "Tb18414", "@treesID": "Tb18414"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^skos:historyNote"], "refersTo": {"@top": "trees", "@idref": "Tb18414", "@treesID": "Tb18414"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["@label"], "refersTo": {"@top": "otus", "@idref": "Tls27105", "@otusID": "Tls27105"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^skos:historyNote"], "refersTo": {"@top": "otus", "@idref": "Tls27105", "@otusID": "Tls27105"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit", "^ot:reasonsToExcludeFromSynthesis", "^tb:kind.tree", "^tb:ntax.tree", "^tb:quality.tree", "^tb:type.tree"], "refersTo": {"@top": "trees", "@idref": "Tr55885", "@treesID": "Tb18414", "@treeID": "Tr55885"}, "@severity": "WARNING"}, {"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:ottId"], "refersTo": {"@top": "otus", "@idref": ["Tl861453", "Tl861456", "Tl861461", "Tl861463"], "@otusID": "Tls27105", "@otuID": ["Tl861453", "Tl861456", "Tl861461", "Tl861463"]}, "@severity": "WARNING"}]}]}, "^ot:candidateTreeForSynthesis": [], "^ot:comment": "", "^ot:curatorName": ["sbyrum"], "^ot:dataDeposit": {"@href": "http://purl.org/phylo/treebase/phylows/study/TB2:S13189"}, "^ot:focalCladeOTTTaxonName": "", "^ot:otusElementOrder": ["Tls27105"], "^ot:studyId": "ot_1430", "^ot:studyPublication": {"@href": ""}, "^ot:studyPublicationReference": "Sereno P.C. 2010. \"Taxonomy, cranial morphology, and relationships of parrot-beaked dinosaurs.\" In: , eds. New Perspectives on Horned Dinosaurs. pp. 21-58. Bloomington, University of Indiana Press.", "^ot:studyYear": 2010, "^ot:tag": [], "^ot:taxonLinkPrefixes": {"@ubio": "http://www.ubio.org/authority/metadata.php?lsid=urn:lsid:ubio.org:namebank:"}, "^ot:treesElementOrder": ["Tb18414"], "^prism:creationDate": "2012-07-30", "^prism:endingPage": "58", "^prism:modificationDate": "2012-08-15", "^prism:pageRange": "21-58", "^prism:publicationDate": "2010", "^prism:section": "Study", "^prism:startingPage": "21", "^skos:changeNote": "Generated on Thu Jun 28 00:21:08 UTC 2018", "^skos:historyNote": "Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlDocumentWriter@7e49fc50 $Rev$", "^tb:identifier.study": "13189", "^tb:title.study": "Taxonomy, cranial morphology, and relationships of parrot-beaked dinosaurs.", "otusById": {"Tls27105": {"@label": "Taxa", "^skos:historyNote": "Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlOTUWriter@5f15bb2a $Rev$", "otuById": {"Tl861453": {"^ot:originalLabel": "Protoceratops", "^ot:taxonLink": {"@tb:identifier.taxon": 613440, "@tb:identifier.taxonVariant": 820458, "@ubio": "4313832"}}, "Tl861454": {"^ot:originalLabel": "Psittacosaurus lujiatunensis", "^ot:ottId": 4126870, "^ot:ottTaxonName": "Psittacosaurus lujiatunensis"}, "Tl861455": {"^ot:originalLabel": "Psittacosaurus neimongoliensis", "^ot:ottId": 4126875, "^ot:ottTaxonName": "Psittacosaurus neimongoliensis"}, "Tl861456": {"^ot:originalLabel": "Liaoceratops", "^ot:taxonLink": {"@tb:identifier.taxon": 613666, "@tb:identifier.taxonVariant": 820718, "@ubio": "4623612"}}, "Tl861457": {"^ot:originalLabel": "Psittacosaurus sinensis", "^ot:ottId": 4126873, "^ot:ottTaxonName": "Psittacosaurus sinensis", "^ot:taxonLink": {"@tb:identifier.taxon": 613671, "@tb:identifier.taxonVariant": 820723, "@ubio": "6559768"}}, "Tl861458": {"^ot:originalLabel": "Psittacosaurus sp.", "^ot:ottId": 4126864, "^ot:ottTaxonName": "Psittacosaurus"}, "Tl861459": {"^ot:originalLabel": "Psittacosaurus sibiricus", "^ot:ottId": 4126868, "^ot:ottTaxonName": "Psittacosaurus sibiricus"}, "Tl861460": {"^ot:originalLabel": "Psittacosaurus meileyingensis", "^ot:ottId": 4126876, "^ot:ottTaxonName": "Psittacosaurus meileyingensis"}, "Tl861461": {"^ot:originalLabel": "Yinlong"}, "Tl861462": {"^ot:originalLabel": "Psittacosaurus mongoliensis", "^ot:ottId": 4126866, "^ot:ottTaxonName": "Psittacosaurus mongoliensis", "^ot:taxonLink": {"@tb:identifier.taxon": 613672, "@tb:identifier.taxonVariant": 820724, "@ubio": "5686912"}}, "Tl861463": {"^ot:originalLabel": "Psittacosaurus xinjiangensis"}, "Tl861464": {"^ot:originalLabel": "Psittacosaurus major", "^ot:ottId": 4126877, "^ot:ottTaxonName": "Psittacosaurus major"}}}}, "treesById": {"Tb18414": {"@label": "Analysis results", "@otus": "Tls27105", "^ot:treeElementOrder": ["Tr55885"], "^skos:historyNote": "Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlTreeBlockWriter@5055d66c $Rev$", "treeById": {"Tr55885": {"@label": "Figure 2.23 E", "@xsi:type": "nex:FloatTree", "^ot:branchLengthDescription": "", "^ot:branchLengthMode": "ot:undefined", "^ot:branchLengthTimeUnit": "", "^ot:curatedType": "Maximum parsimony ", "^ot:inGroupClade": "Tn9169954", "^ot:nodeLabelMode": "", "^ot:nodeLabelTimeUnit": "", "^ot:outGroupEdge": "", "^ot:reasonsToExcludeFromSynthesis": [], "^ot:rootNodeId": "Tn9169954", "^ot:specifiedRoot": "Tn9169954", "^ot:tag": [], "^ot:unrootedTree": false, "^tb:kind.tree": "Species Tree", "^tb:ntax.tree": 8, "^tb:quality.tree": "Unrated", "^tb:type.tree": "Consensus", "edgeBySourceId": {"Tn9169947": {"edge388938": {"@source": "Tn9169947", "@target": "Tn9169957"}, "edge388940": {"@source": "Tn9169947", "@target": "Tn9169959"}, "edge388942": {"@source": "Tn9169947", "@target": "Tn9169960"}}, "Tn9169948": {"edge388932": {"@source": "Tn9169948", "@target": "Tn9169953"}, "edge388934": {"@source": "Tn9169948", "@target": "Tn9169955"}}, "Tn9169954": {"edge388922": {"@source": "Tn9169954", "@target": "Tn9169950"}, "edge388924": {"@source": "Tn9169954", "@target": "Tn9169956"}}, "Tn9169956": {"edge388926": {"@source": "Tn9169956", "@target": "Tn9169958"}, "edge388936": {"@source": "Tn9169956", "@target": "Tn9169947"}}, "Tn9169958": {"edge388928": {"@source": "Tn9169958", "@target": "Tn9169951"}, "edge388930": {"@source": "Tn9169958", "@target": "Tn9169948"}}, "Tn9169960": {"edge388944": {"@source": "Tn9169960", "@target": "Tn9169952"}, "edge388946": {"@source": "Tn9169960", "@target": "Tn9169949"}}}, "nodeById": {"Tn9169947": {}, "Tn9169948": {}, "Tn9169949": {"@otu": "Tl861457"}, "Tn9169950": {"@otu": "Tl861462"}, "Tn9169951": {"@otu": "Tl861460"}, "Tn9169952": {"@otu": "Tl861455"}, "Tn9169953": {"@otu": "Tl861454"}, "Tn9169954": {"@root": true}, "Tn9169955": {"@otu": "Tl861464"}, "Tn9169956": {}, "Tn9169957": {"@otu": "Tl861458"}, "Tn9169958": {}, "Tn9169959": {"@otu": "Tl861459"}, "Tn9169960": {}}}}}}}}, "branch2sha": {"master": "c33806c9ee11db205ee8c02a42e31b1c3128e299"}, "commentHTML": "", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "b8911028feb942109e1259242a259312bf2aec24", "author_name": "sbyrum", "author_email": "s.byrum@ku.edu", "date": "Wed, 4 Jul 2018 01:09:33 +0000", "date_ISO_8601": "2018-07-04 01:09:33 +0000", "relative_date": "8 years ago", "message_subject": "Update document 'ot_1430' via OpenTree API"}, {"id": "c3b86832a16e46a0ebd2dcf30e880e9b54ea7449", "author_name": "sbyrum", "author_email": "s.byrum@ku.edu", "date": "Thu, 28 Jun 2018 00:27:12 +0000", "date_ISO_8601": "2018-06-28 00:27:12 +0000", "relative_date": "8 years ago", "message_subject": "Update document 'ot_1430' via OpenTree API"}, {"id": "22c967b22bc4d1b6ba02ca17c5c3ad348387f436", "author_name": "sbyrum", "author_email": "s.byrum@ku.edu", "date": "Thu, 28 Jun 2018 00:21:09 +0000", "date_ISO_8601": "2018-06-28 00:21:09 +0000", "relative_date": "8 years ago", "message_subject": "Update document 'ot_1430' via OpenTree API"}]}