Merge pull request #449 from nextstrain/andv-update

andv: update datasets

Author: rneher

data/community/itps/orov/L/refseq/pathogen.json

@@ -7,25 +7,13 @@
   "attributes": {
     "name": "orov/L/refseq",
     "reference accession": "NC_005776.1",
-    "reference name": "Oropouche virus, L segment"
+    "reference name": "Oropouche virus, L segment",
+    "experimental": true
   },
   "compatibility": {
     "cli": "3.0.0-alpha.0",
     "web": "3.0.0-alpha.0"
   },
-  "placementMaskRanges": [
-    {
-      "begin": 0,
-      "end": 43
-    },
-    {
-      "begin": 6796,
-      "end": 6846
-    }
-  ],
-  "deprecated": false,
-  "enabled": true,
-  "experimental": true,
   "files": {
     "changelog": "CHANGELOG.md",
     "examples": "sequences.fasta",

data/community/itps/orov/L/refseq/tree.json

@@ -11,7 +11,7 @@
     ],
     "maintainers": [
       {
-        "name": "Instituto Todos pela Sa\u00fade",
+        "name": "Instituto Todos pela Saúde",
         "url": "https://www.itps.org.br/"
       }
     ],
@@ -85,7 +85,21 @@
       "map",
       "entropy",
       "frequencies"
-    ]
+    ],
+    "extensions": {
+      "nextclade": {
+        "placement_mask_ranges": [
+          {
+            "begin": 0,
+            "end": 43
+          },
+          {
+            "begin": 6796,
+            "end": 6846
+          }
+        ]
+      }
+    }
   },
   "tree": {
     "name": "NODE_0000000",
@@ -10338,4 +10352,4 @@
     "L": "MSQLLLNQYRNRILHCREPEIAKDIWRDLLNDRHNYFSREFCRAANLEYRNDVPAEDICAEVLDGYKARKVRFCTPDNYLLHDGKMYIIDFKVSVDDRSSRITREKYNEIFGEVFNPEGVDFEIVIIRLDPSNMTIHVDSRDFVNTIGPITLNISMQWFFDMKDFLFGKFRDDDKFHAIISQGEFTMTLPWIEEDTPELLTHPIYNEFMSSMPEAEQALFKEALEFKSFGAEKWNIFLKGVMSKYGEYYKEFTKGHAHSIFLTTGDYPKPDKDQISAGWREMVNRVSSERDMSNDINQEKPSMHFIWAKNDSNSNNNIQKLIKLSKSLQAMSGTGSYVNAFKSLGRLMDISSDVKKYESFCGKLKSLARSSIKKLDRKIEPIQIGTATVLWEQQFKLDTDVIKREDRIHLMKDYLGIGKHKSFSKKLNNDINTDKPKILNFNNDDIVRKCKDKYNQVIHNLSQINELDKIGNYLEHFSAKISACSVEMWDFIYNTTKTKYWQCINDYSTLMKNMLAVSQYNRHNTFRIVSCANNNVFGLVMPSSDIKTKKATLVYAIMALHNEEAEIAELGSLYSTFKTATGYISISKAFRLDKERCQRIVSSPGLFLMTSCLLFNGNKSLEFDKLLGFSFFTSISITKAMLSLTEPSRYMIMNSLAVSSHVREYISEKFSPYTKTSFSVVMTDLIKKGCYSAYEQRKKVQIRDIKLTDYDITQKGVDSKRDLKSIWFPGKVNLKEYLNQIYLPFYFNSKGLHEKHHVLIDLAKTVLEIEKEQRESLPEPWSEIPAKRLSLNVLIYSLQELNLDTSRHNFVRSRVENANNFNRSITTISTFTSSKSCIKIGDFEEEKREKLRMIQKKLAKDISKLTIANPAFLDEITNEHEIRHSTYEDLKQSIPDYTDYMSVKVFDRLYEKITTNEINDKETVKLILETMKKHKIFHFGFFNKGQKTAKDREIFLGEFEAKMCLYLVERIAKERCKLNPEEMISEPGDSKLRVLEKQSEDEIRYISNTIKTLGNAIENLQSGSLNWADICENKARGLKIEINADMSKWSAQDVLFKYFWLIVLDPILYPAERKRIIYFLCNYMQKRLIMPDELLTTILDQRVPYSNDIIGLMTNNYRSNTVEIKRNWLQGNLNYTSSYLHSCSMSVYKDIIREAAILLEGEALVNSMVHSDDNQTSICMVQNKLPDDNIIEFCIKIFEKICLTFGNQANMKKTYLTNFIKEFVSLFNIHGEPFSIYGRFLLTAVGDCAYLGPYEDLASRLSATQTAIKHGCPPSLAWVSIALNHWITHTTYNMLPGQNNDPLPFFPTNNRSEIPVEMCGILESDLSTIALTGLEAGNVTFLTNIARKLSSPILQRESIQDQYNSIEKWDLSKLSQIDILRLKMLRYISLDSSVTSDDGMGETSEMRSRSLLTPRKFTTSGSLNRLKSYKDFQDIIADEDKTNELFENFIRHPELLVTKGETFEEFVNTILFRYNSKKFKESLSIQNPAQLFIEQILFSNKPVIDYTSIHDKIFGLQDMPGIEELDTIIGRKTFVESYVQIVDDLSNLTLDINDVKTIFAFCLMNDPLLITSANNIIMSVKGHSQERIGQSACKMPEVRSLKLIHYSPAVVLRAYVRGPTNVPNVDIDELARDLSHLEDFIQSTKLRENMRERIEINEKRHLGRDFKFEIKELTRFYQVCYDYIKSTEHKVKVFILPYKVFTSIEFCGALTGNLINDKLWYITHYLKNIVSTTHKAQISSSPELELQIADEALRLVAHFADTFLASESRIQFLKKIIEEFTYKGIPVKHLYSKIKNSKLRVKFLGILLWLDDLTQNDLDKFDADKSDEKIIWNNWQVSRDMNTGPIDLMISGYSRQLRITGEDDKLIAAELQVTRLSEDLIYRHGQAMLNKPHGLKLEKMQPVTEMSKRLHYIVFQQRSRKRYFYSILPTQVIEDHNSRVESSRLSRDSKWVPVCPVAISKLYQQGRPILSKVRNLNMQTHSLSRIQVNVDEYAITRRAHFQKMPFFEGPSIPSGGMDLSELMKSTSLLSLNYDNIKNASLLDMSRVFKCNGSGDDQMAFEFLSDEILEQDVVEEIECNPIFSISYTKRGESNMTYKNAFHKALISECDKFEEAFDFLDMGFCSNENLSILEEIHWIISYLKTNQWSTELDNCIHMCMYRNGYDAEYHKFDIPSKFLKDPINRTINWTEVIEFILLIEDFQTKIEPWSSMKSHFCSKAHSVALECMKNEKRSLAEFVDKSKKTGKSKFDF*",
     "nuc": "AGTAGTGTGCTCCTATTCCGAAACAAACAAAAACAATCTCAAAATGTCACAACTGTTGCTCAACCAATATCGGAATAGGATATTGCACTGCCGTGAACCTGAGATAGCAAAGGATATATGGCGAGATCTATTAAATGATCGACACAATTACTTTTCTCGGGAATTTTGCAGAGCTGCAAATCTTGAGTACAGAAATGATGTTCCTGCTGAGGATATTTGTGCTGAAGTTCTTGATGGTTATAAAGCAAGGAAAGTTCGCTTTTGTACACCTGATAATTACTTACTACATGATGGAAAGATGTATATAATAGACTTCAAAGTGTCTGTAGACGACCGATCTTCTAGAATCACAAGGGAGAAATATAATGAGATTTTTGGAGAGGTATTCAATCCAGAAGGTGTAGATTTTGAAATTGTTATTATTAGATTAGATCCTTCAAATATGACGATACATGTGGACTCTCGAGATTTCGTGAATACAATTGGGCCGATTACATTAAACATTAGTATGCAATGGTTTTTTGATATGAAAGACTTCTTGTTCGGGAAATTTCGGGATGATGATAAATTCCATGCTATAATAAGTCAAGGAGAATTCACAATGACATTGCCATGGATTGAAGAAGACACCCCAGAATTGCTTACTCATCCTATATACAATGAATTCATGAGTTCAATGCCAGAGGCAGAACAGGCCCTATTCAAGGAAGCATTGGAATTCAAATCATTTGGGGCAGAAAAATGGAATATCTTTTTGAAGGGGGTGATGTCAAAGTATGGTGAATATTATAAAGAATTTACTAAAGGACATGCTCATTCTATATTTCTGACAACAGGGGACTACCCCAAGCCAGACAAAGACCAAATTTCAGCAGGTTGGAGAGAAATGGTAAACAGAGTAAGCTCTGAACGTGACATGTCAAATGACATAAATCAGGAAAAACCAAGCATGCATTTTATATGGGCAAAGAATGATTCAAATAGCAACAATAATATACAAAAGCTAATCAAACTATCTAAATCACTGCAAGCTATGAGCGGGACAGGGAGCTATGTAAATGCTTTCAAGTCATTAGGGAGATTAATGGATATATCATCAGATGTTAAAAAATATGAATCATTTTGTGGGAAATTGAAATCTCTGGCAAGGTCTAGTATAAAAAAACTTGACAGGAAAATAGAGCCAATACAAATTGGGACTGCAACTGTCTTATGGGAACAGCAATTTAAACTAGATACAGATGTTATAAAAAGAGAAGACAGAATACATTTAATGAAAGATTATCTTGGGATCGGTAAGCACAAATCATTTTCAAAGAAATTAAACAACGACATAAATACTGATAAGCCTAAAATATTAAATTTCAACAATGATGATATAGTCAGGAAATGCAAAGATAAATATAATCAAGTCATACATAACCTATCCCAAATCAATGAATTAGATAAGATTGGAAACTACCTAGAGCACTTTTCAGCTAAAATTAGTGCCTGCAGTGTAGAAATGTGGGATTTTATATATAATACAACCAAAACTAAATACTGGCAATGCATCAATGACTATTCCACCCTAATGAAAAACATGTTAGCTGTCTCTCAATATAATAGACACAATACGTTTAGAATTGTCTCATGTGCAAACAATAATGTATTTGGTCTAGTAATGCCAAGCTCAGATATAAAGACAAAAAAAGCAACTTTAGTCTATGCAATAATGGCTCTCCATAATGAGGAGGCAGAAATAGCAGAACTTGGCTCACTCTACTCAACTTTTAAGACAGCAACAGGATATATTTCAATATCAAAGGCTTTTAGGCTGGATAAAGAAAGATGCCAACGCATAGTATCCTCTCCAGGCTTGTTCCTCATGACAAGCTGCCTATTATTCAACGGTAACAAGAGTTTAGAATTTGATAAATTACTAGGATTTTCATTTTTTACGTCAATATCAATTACGAAAGCTATGCTCTCCCTTACTGAGCCTTCACGTTATATGATCATGAACTCGTTAGCAGTTTCCAGCCATGTAAGAGAGTATATATCTGAAAAATTCTCCCCTTATACAAAAACATCATTTTCTGTGGTAATGACAGACTTAATCAAGAAGGGTTGCTATTCAGCATATGAACAGAGAAAAAAAGTACAAATAAGAGACATAAAATTAACAGATTATGATATAACACAAAAGGGAGTGGATTCCAAAAGAGATCTTAAATCTATTTGGTTCCCAGGAAAGGTAAACCTGAAAGAATATTTAAACCAAATTTATCTACCATTTTATTTTAACTCTAAAGGATTACATGAAAAACATCATGTCTTGATAGATTTGGCTAAAACAGTACTAGAAATCGAAAAAGAGCAAAGGGAGTCATTACCTGAGCCATGGTCAGAGATACCTGCTAAGCGACTGTCACTTAATGTTTTAATTTACTCATTGCAGGAACTGAATTTAGATACTTCAAGACATAATTTTGTAAGAAGCCGGGTGGAAAACGCAAATAATTTCAACAGATCTATAACGACAATATCTACTTTTACCAGCTCAAAATCATGCATTAAGATTGGTGATTTTGAAGAAGAAAAAAGAGAAAAACTAAGAATGATACAAAAGAAACTTGCAAAGGATATTTCTAAATTAACCATAGCCAACCCAGCATTCTTAGATGAGATCACAAACGAACATGAGATAAGGCATTCAACTTATGAGGACTTAAAACAATCTATCCCAGATTACACAGATTATATGTCTGTGAAAGTTTTTGACAGATTGTACGAGAAGATTACTACCAATGAAATAAATGATAAGGAAACAGTCAAGCTGATTCTAGAGACCATGAAAAAACATAAAATATTTCATTTTGGATTCTTCAATAAAGGACAAAAAACAGCCAAAGATAGAGAAATATTTTTAGGTGAATTTGAAGCAAAAATGTGTCTGTACCTTGTCGAAAGAATAGCTAAAGAGAGGTGCAAATTAAACCCTGAAGAAATGATAAGTGAACCAGGCGACTCGAAACTAAGGGTATTAGAGAAGCAATCAGAAGACGAAATCAGGTATATTAGCAATACAATAAAGACATTAGGGAATGCCATAGAGAACTTGCAATCTGGATCTTTAAATTGGGCAGATATATGCGAAAACAAAGCAAGAGGACTTAAGATAGAAATAAATGCTGATATGTCCAAATGGAGTGCCCAAGATGTACTTTTTAAATATTTTTGGTTGATAGTGCTTGATCCCATCTTATATCCTGCTGAGAGGAAAAGGATAATTTATTTCCTCTGTAATTATATGCAGAAAAGGCTTATAATGCCCGATGAATTGCTCACTACTATATTGGATCAAAGAGTTCCTTATTCAAATGACATAATTGGATTAATGACAAACAATTATAGGTCTAATACAGTAGAAATAAAGCGTAACTGGCTTCAAGGCAACTTAAATTATACAAGCAGTTACTTACACAGCTGTAGTATGTCTGTGTACAAAGATATAATAAGAGAAGCAGCAATATTATTAGAAGGAGAAGCCCTTGTGAACTCAATGGTACATTCTGATGATAATCAAACATCTATATGTATGGTGCAGAATAAATTACCAGATGACAATATAATTGAATTTTGCATTAAGATATTCGAGAAGATATGCTTAACTTTTGGCAATCAGGCAAATATGAAGAAGACATATCTAACTAACTTCATCAAAGAGTTTGTTTCTTTATTTAATATACATGGAGAACCATTTTCTATATATGGGAGATTTCTACTCACAGCAGTAGGAGACTGTGCCTATCTAGGGCCTTATGAAGATTTAGCAAGTAGGCTATCTGCAACACAAACTGCTATAAAGCATGGTTGCCCACCATCACTTGCATGGGTATCTATCGCTCTAAATCACTGGATAACCCACACTACATATAATATGTTGCCTGGCCAAAATAATGACCCGTTACCATTCTTCCCTACTAACAATAGAAGTGAAATACCAGTAGAGATGTGCGGAATACTAGAAAGTGATTTATCAACAATTGCACTAACTGGTTTAGAAGCAGGGAATGTCACGTTTCTAACAAATATAGCAAGGAAGTTATCATCCCCAATCTTACAAAGAGAAAGTATTCAAGATCAATACAATTCTATAGAAAAGTGGGATCTGAGCAAATTATCACAGATCGACATTCTAAGGCTTAAAATGCTCAGGTATATATCTCTTGATAGTTCAGTCACATCTGATGATGGTATGGGGGAGACTAGTGAAATGAGATCTCGATCACTTTTAACACCTCGTAAATTCACAACAAGTGGGTCACTTAATAGGTTGAAATCATATAAAGACTTTCAAGATATAATAGCAGATGAGGACAAGACAAACGAACTATTTGAGAATTTCATTAGACACCCAGAGTTACTGGTTACAAAAGGCGAAACATTTGAAGAATTTGTTAATACGATATTATTTAGGTACAATTCAAAGAAATTCAAAGAATCTTTGTCAATACAAAACCCAGCACAGCTTTTTATTGAGCAAATATTATTTTCCAATAAACCAGTAATTGACTACACTAGCATACATGACAAGATTTTTGGATTACAAGACATGCCAGGAATTGAAGAACTAGATACAATTATAGGTCGCAAAACATTTGTTGAGAGTTATGTTCAAATCGTAGATGACTTAAGCAATTTAACATTGGATATAAACGATGTCAAGACTATATTTGCCTTTTGTCTTATGAATGACCCACTACTGATCACATCTGCTAACAATATAATAATGTCTGTTAAGGGACATAGTCAAGAAAGAATAGGTCAATCAGCATGCAAAATGCCAGAGGTCCGAAGTCTAAAACTCATACATTATTCACCAGCAGTTGTTTTGAGAGCCTATGTGAGAGGGCCAACAAATGTACCGAATGTAGATATAGATGAACTTGCAAGGGATCTATCTCATTTAGAAGACTTCATACAAAGTACAAAACTCAGAGAAAATATGAGAGAGAGAATAGAAATAAATGAGAAGCGGCACTTAGGAAGGGATTTCAAATTTGAAATCAAAGAACTAACTAGATTTTACCAAGTGTGTTATGATTACATAAAGTCTACAGAACATAAAGTCAAGGTATTCATATTGCCATACAAAGTTTTCACATCAATAGAATTCTGCGGGGCACTGACAGGTAACTTGATAAATGACAAATTATGGTACATAACGCATTATCTGAAAAATATAGTGTCTACTACACATAAGGCACAAATTTCTTCTTCACCTGAATTGGAATTGCAAATTGCTGATGAGGCACTAAGACTAGTAGCACATTTTGCTGATACTTTCTTGGCATCAGAATCAAGAATACAATTTCTGAAGAAAATTATTGAAGAATTCACATACAAAGGGATACCTGTAAAACATTTATACTCAAAAATAAAGAACTCCAAGTTGAGGGTTAAATTTCTAGGGATTCTTTTATGGTTAGATGATCTAACACAGAATGATCTGGATAAATTTGATGCAGATAAATCAGATGAAAAGATTATATGGAATAACTGGCAAGTGTCAAGAGATATGAATACTGGACCAATAGACTTAATGATAAGCGGTTACTCTAGACAGCTGCGGATCACTGGGGAAGATGACAAATTGATTGCTGCTGAATTGCAGGTTACTAGATTGTCAGAAGATTTAATTTATAGACACGGTCAGGCAATGTTGAATAAGCCACACGGCTTAAAGCTTGAAAAAATGCAACCTGTGACTGAGATGTCTAAACGATTACATTATATCGTTTTCCAGCAAAGATCACGGAAACGATACTTCTATTCTATATTACCCACCCAAGTAATTGAGGACCATAATTCTAGAGTTGAATCATCTAGGCTAAGCAGAGATTCAAAATGGGTTCCTGTATGCCCTGTTGCAATATCAAAACTCTACCAACAAGGACGGCCTATACTTTCCAAAGTTAGAAATCTGAATATGCAGACTCATTCGCTTTCCAGAATACAAGTTAATGTAGATGAATATGCCATCACGAGAAGAGCACATTTTCAGAAAATGCCTTTCTTCGAAGGACCATCAATCCCTTCTGGTGGTATGGATTTGTCTGAGTTGATGAAATCTACATCCCTATTAAGCTTGAATTATGATAACATAAAAAATGCATCCTTATTGGACATGTCTAGGGTATTTAAGTGCAATGGCAGTGGAGATGACCAAATGGCTTTCGAATTTCTATCGGACGAAATTTTGGAGCAAGATGTAGTTGAAGAAATAGAATGCAACCCTATATTTTCTATTAGTTATACAAAAAGAGGAGAATCCAATATGACTTATAAAAATGCTTTCCACAAAGCCTTAATCTCAGAATGTGACAAATTTGAAGAAGCATTTGACTTCCTCGACATGGGATTTTGCTCGAATGAAAATCTTAGTATTCTGGAGGAAATACATTGGATAATCAGTTATTTAAAAACAAATCAATGGTCTACGGAACTAGACAATTGTATTCACATGTGCATGTACAGGAATGGATATGATGCAGAATATCATAAATTTGATATACCCTCTAAATTCCTCAAAGACCCAATAAACCGAACAATAAATTGGACTGAAGTCATTGAATTTATATTATTAATTGAAGATTTCCAAACAAAAATTGAGCCATGGTCTAGTATGAAGTCACACTTCTGTTCAAAAGCACACAGTGTAGCACTAGAGTGTATGAAAAATGAGAAAAGATCATTGGCAGAATTTGTAGACAAAAGTAAGAAAACTGGCAAATCCAAATTTGACTTCTAAGGTATACACATGTAAAAGTAGTGTTTGTTTCTAAATAGGAGCACACTACT"
   }
-}
+}

data/community/itps/orov/L/tefe/pathogen.json

@@ -6,25 +6,13 @@
   "attributes": {
     "name": "orov/L/tefe",
     "reference accession": "PP154172.1",
-    "reference name": "Oropouche virus ILMD_TF29 (tefe), L segment"
+    "reference name": "Oropouche virus ILMD_TF29 (tefe), L segment",
+    "experimental": true
   },
   "compatibility": {
     "cli": "3.0.0-alpha.0",
     "web": "3.0.0-alpha.0"
   },
-  "placementMaskRanges": [
-    {
-      "begin": 0,
-      "end": 35
-    },
-    {
-      "begin": 6794,
-      "end": 6814
-    }
-  ],
-  "deprecated": false,
-  "enabled": true,
-  "experimental": true,
   "files": {
     "changelog": "CHANGELOG.md",
     "examples": "sequences.fasta",