annotate test-data/dataset_1_files/data/trackList.json @ 10:c6172b538caf draft

"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 08015be1ee8a784e0619f961aaa724857debfd6f"

{
   "formatVersion" : 1,
   "hideGenomeOptions" : false,
   "names" : {
      "type" : "Hash",
      "url" : "names/"
   },
   "plugins" : [
      {
         "location" : "https://cdn.jsdelivr.net/gh/TAMU-CPT/blastview@97572a21b7f011c2b4d9a0b5af40e292d694cbef/",
         "name" : "BlastView"
      }
   ],
   "refSeqs" : "seq/genome.fasta.fai",
   "shareLink" : true,
   "show_menu" : true,
   "show_nav" : true,
   "show_overview" : true,
   "show_tracklist" : true,
   "tracks" : [
      {
         "category" : "Reference sequence",
         "codonStarts" : [
            "TTG",
            "CTG",
            "ATG"
         ],
         "codonStops" : [
            "TAA",
            "TAG",
            "TGA"
         ],
         "codonTable" : {
            "AAA" : "K",
            "AAC" : "N",
            "AAG" : "K",
            "AAT" : "N",
            "ACA" : "T",
            "ACC" : "T",
            "ACG" : "T",
            "ACT" : "T",
            "AGA" : "R",
            "AGC" : "S",
            "AGG" : "R",
            "AGT" : "S",
            "ATA" : "I",
            "ATC" : "I",
            "ATG" : "M",
            "ATT" : "I",
            "CAA" : "Q",
            "CAC" : "H",
            "CAG" : "Q",
            "CAT" : "H",
            "CCA" : "P",
            "CCC" : "P",
            "CCG" : "P",
            "CCT" : "P",
            "CGA" : "R",
            "CGC" : "R",
            "CGG" : "R",
            "CGT" : "R",
            "CTA" : "L",
            "CTC" : "L",
            "CTG" : "L",
            "CTT" : "L",
            "GAA" : "E",
            "GAC" : "D",
            "GAG" : "E",
            "GAT" : "D",
            "GCA" : "A",
            "GCC" : "A",
            "GCG" : "A",
            "GCT" : "A",
            "GGA" : "G",
            "GGC" : "G",
            "GGG" : "G",
            "GGT" : "G",
            "GTA" : "V",
            "GTC" : "V",
            "GTG" : "V",
            "GTT" : "V",
            "TAC" : "Y",
            "TAT" : "Y",
            "TCA" : "S",
            "TCC" : "S",
            "TCG" : "S",
            "TCT" : "S",
            "TGC" : "C",
            "TGG" : "W",
            "TGT" : "C",
            "TTA" : "L",
            "TTC" : "F",
            "TTG" : "L",
            "TTT" : "F"
         },
         "faiUrlTemplate" : "seq/genome.fasta.fai",
         "key" : "Reference sequence",
         "label" : "DNA",
         "metadata" : {
            "dataset_edam_format" : "<a target=\"_blank\" href=\"http://edamontology.org/format_1929\">fasta</a>",
            "dataset_file_ext" : "fasta",
            "dataset_hid" : "1",
            "dataset_id" : "7495a4247e72f5f1",
            "dataset_size" : "171.6 KB",
            "history_display_name" : "<a target=\"_blank\" href=\"http://localhost/history/view/d29e465b351a50c9\">Unnamed history</a>",
            "history_id" : "d29e465b351a50c9",
            "history_user_email" : "<a href=\"mailto:[e-mail]\">[e-mail]</a>",
            "history_user_id" : "17",
            "metadata_data_lines" : "2881",
            "metadata_dbkey" : "?",
            "metadata_sequences" : "1",
            "tool_tool" : "<a target=\"_blank\" href=\"http://localhost/datasets/7495a4247e72f5f1/show_params\">upload1</a>",
            "tool_tool_id" : "upload1",
            "tool_tool_version" : "1.1.6"
         },
         "seqType" : "dna",
         "storeClass" : "JBrowse/Store/SeqFeature/IndexedFasta",
         "type" : "SequenceTrack",
         "urlTemplate" : "seq/genome.fasta",
         "useAsRefSeqStore" : 1
      },
      {
         "category" : "Default",
         "key" : "merlin.gff",
         "label" : "4ced49b280a72a29f1b922ae1a9664c8_0",
         "maxHeight" : "600",
         "menuTemplate" : [
            {},
            {},
            {},
            {}
         ],
         "metadata" : {
            "dataset_edam_format" : "<a target=\"_blank\" href=\"http://edamontology.org/format_1975\">gff3</a>",
            "dataset_file_ext" : "gff3",
            "dataset_hid" : "2",
            "dataset_id" : "b02ee2031011d9cf",
            "dataset_size" : "110.3 KB",
            "history_display_name" : "<a target=\"_blank\" href=\"http://localhost/history/view/d29e465b351a50c9\">Unnamed history</a>",
            "history_id" : "d29e465b351a50c9",
            "history_user_email" : "<a href=\"mailto:[e-mail]\">[e-mail]</a>",
            "history_user_id" : "17",
            "metadata_attributes" : "4",
            "metadata_columns" : "9",
            "metadata_comment_lines" : "2",
            "metadata_data_lines" : "1228",
            "metadata_dbkey" : "?",
            "metadata_delimiter" : "__tc__",
            "tool_tool" : "<a target=\"_blank\" href=\"http://localhost/datasets/b02ee2031011d9cf/show_params\">upload1</a>",
            "tool_tool_id" : "upload1",
            "tool_tool_version" : "1.1.6"
         },
         "overrideDraggable" : false,
         "overridePlugins" : false,
         "storeClass" : "JBrowse/Store/SeqFeature/GFF3Tabix",
         "style" : {
            "className" : "feature",
            "color" : "#a6cee3",
            "description" : "note,description",
            "label" : "product,name,id"
         },
         "trackType" : "NeatHTMLFeatures/View/Track/NeatFeatures",
         "type" : "NeatHTMLFeatures/View/Track/NeatFeatures",
         "urlTemplate" : "raw/4ced49b280a72a29f1b922ae1a9664c8_0.gff.gz"
      }
   ],
   "view" : {
      "trackPadding" : 20
   }
}