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"@property": "ot:nodeLabelMode", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:nodeLabelTimeUnit", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:outGroupEdge", "@datatype": "xsd:string", "$": ""}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:specifiedRoot", "@datatype": "xsd:string", "$": "node1147286"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:tag", "@datatype": "xsd:string", "$": "choose me"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:tag", "@datatype": "xsd:string", "$": "rooted"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:tag", "@datatype": "xsd:string", "$": "ingroup added"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:unrootedTree", "@datatype": "xsd:boolean", "$": false}]}], "@about": "#trees2838"}, "@about": "#study", "meta": [{"agent": [{"@description": "validator of NexSON constraints as well as constraints that would allow a study to be imported into the Open 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"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": "2014-08-18T20:28:56.777Z", "@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": {"$": "meta"}}}], "@about": "#supporting-files-metadata"}, {"@id": "peyotl-validator-event", "@description": "Open Tree NexSON validation", "@wasAssociatedWithAgentId": "peyotl-validator", "@passedChecks": true, "@preserve": false, "message": [{"@code": "MISSING_OPTIONAL_KEY", "data": ["^ot:ottId"], "refersTo": {"@top": "otus", "@idref": "otu421881", "@otusID": "otus2838", "@otuID": "otu421881"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:comment"], "refersTo": {"@top": "nexml", "@idref": "study"}, "@severity": "WARNING"}, {"@code": "UNRECOGNIZED_KEY", "data": ["^ot:nodeLabelMode", "^ot:nodeLabelTimeUnit"], "refersTo": {"@top": "trees", "@idref": "tree6594", "@treesID": "trees2838", "@treeID": "tree6594"}, "@severity": "WARNING"}], "@about": "#peyotl-validator-event"}], "@xsi:type": "nex:LiteralMeta", "@property": "ot:annotationEvents"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:candidateTreeForSynthesis", "@datatype": "xsd:string", "$": "tree6594"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:comment", "@datatype": "xsd:string", "$": "Focal clade says \"Pleocyemata\", but looks like \"Decapoda\" (JWB)."}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatorName", "@datatype": "xsd:string", "$": "Chris Owen"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:curatorName", "@datatype": "xsd:string", "$": "Joseph W. Brown"}, {"@href": "", "@xsi:type": "nex:ResourceMeta", "@rel": "ot:dataDeposit"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:focalClade", "@datatype": "xsd:int", "$": 736321}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:focalCladeOTTTaxonName", "@datatype": "xsd:string", "$": "Pleocyemata"}, {"message": [], "@xsi:type": "nex:LiteralMeta", "@property": "ot:messages"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:notIntendedForSynthesis", "@datatype": "xsd:boolean", "$": false}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyId", "@datatype": "xsd:string", "$": "pg_2838"}, {"@href": "http://dx.doi.org/10.1093/sysbio/syu008", "@xsi:type": "nex:ResourceMeta", "@rel": "ot:studyPublication"}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyPublicationReference", "@datatype": "xsd:string", "$": "Bracken-Grissom, Heather D., Shane T. Ahyong, Richard D. Wilkinson, Rodney M. Feldmann, Carrie E. Schweitzer, Jesse W. Breinholt, Matthew Bendall, Ferran Palero, Tin-Yam Chan, Darryl L. Felder, Rafael Robles, Ka-Hou Chu, Ling-Ming Tsang, Dohyup Kim, Joel W. Martin, and Keith A. Crandall. 2014. \r\nThe emergence of the lobsters: phylogenetic relationships, morphological evolution and divergence time comparisons of an ancient group (Decapoda: Achelata, Astacidea, Glypheidea, Polychelida). Systematic Biology: syu008v1-syu008."}, {"@xsi:type": "nex:LiteralMeta", "@property": "ot:studyYear", "@datatype": "xsd:int", "$": 2014}]}}, "branch2sha": {"master": "783c337d3b467b6f3d70bb8decd56861e6050bb1"}, "commentHTML": "
Focal clade says \"Pleocyemata\", but looks like \"Decapoda\" (JWB).
", "duplicateStudyIDs": [], "shardName": "phylesystem-1", "versionHistory": [{"id": "084b60a5c714e63f04fb2739c76bda60498fb5b8", "author_name": "Joseph W. Brown", "author_email": "ANONYMOUS", "date": "Wed, 19 Aug 2015 14:27:53 +0000", "date_ISO_8601": "2015-08-19 14:27:53 +0000", "relative_date": "9 years ago", "message_subject": "map", "message_body": "(Update Study #pg_2838 via OpenTree API)"}, {"id": "04dba99c1d0c4dcbbbf63ad2631bed18578ae027", "author_name": "Joseph W. Brown", "author_email": "ANONYMOUS", "date": "Mon, 18 Aug 2014 20:31:39 +0000", "date_ISO_8601": "2014-08-18 20:31:39 +0000", "relative_date": "10 years ago", "message_subject": "comment", "message_body": "(Update Study #pg_2838 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": "10 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": "10 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": "10 years ago", "message_subject": "initial commit with phylografter files from 29 Apr, 2014"}]}