diff x/config.json @ 127:fbabf7498471 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 116b1a4bbd62251ad552306df2dc8aa8f46c6721
author fubar
date Mon, 07 Oct 2024 02:11:55 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/x/config.json	Mon Oct 07 02:11:55 2024 +0000
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+{
+  "plugins": [
+    {
+      "name": "BedScorePlugin",
+      "umdLoc": {
+        "uri": "bedscoreplugin.js"
+      }
+    },
+    {
+      "name": "MafViewer",
+      "url": "https://unpkg.com/jbrowse-plugin-mafviewer/dist/jbrowse-plugin-mafviewer.umd.production.min.js"
+    }
+  ],
+  "configuration": {
+    "disableAnalytics": false,
+    "theme": {
+      "palette": {
+        "primary": {
+          "main": "#0d233f"
+        },
+        "secondary": {
+          "main": "#721e63"
+        },
+        "tertiary": {
+          "main": "#135560"
+        },
+        "quaternary": {
+          "main": "#ffb11d"
+        }
+      },
+      "typography": {
+        "fontSize": 10
+      }
+    }
+  },
+  "defaultSession": {
+    "name": "New test session",
+    "views": [
+      {
+        "type": "LinearGenomeView",
+        "offsetPx": 0,
+        "bpPerPx": 50,
+        "minimized": false,
+        "tracks": [
+          {
+            "type": "FeatureTrack",
+            "configuration": "merlin.gff3_0",
+            "displays": [
+              {
+                "type": "LinearBasicDisplay",
+                "displayId": "merlin.gff3_0-LinearBasicDisplay",
+                "trackShowLabels": false,
+                "trackShowDescriptions": false,
+                "configuration": "merlin.gff3_0-LinearBasicDisplay"
+              }
+            ]
+          },
+          {
+            "type": "QuantitativeTrack",
+            "configuration": "merlin.bw_1",
+            "displays": [
+              {
+                "type": "LinearWiggleDisplay",
+                "displayId": "merlin.bw_1-LinearWiggleDisplay",
+                "color": "#135560",
+                "autoscale": "globalsd",
+                "resolution": 1,
+                "summaryScoreMode": "whiskers",
+                "filled": false,
+                "scaleType": "linear",
+                "displayCrossHatches": false,
+                "configuration": "merlin.bw_1-LinearWiggleDisplay"
+              }
+            ]
+          },
+          {
+            "type": "FeatureTrack",
+            "configuration": "test-6.bed_2",
+            "displays": [
+              {
+                "type": "LinearBasicDisplay",
+                "displayId": "test-6.bed_2-LinearBasicDisplay",
+                "trackShowLabels": false,
+                "trackShowDescriptions": false,
+                "configuration": "test-6.bed_2-LinearBasicDisplay"
+              }
+            ]
+          },
+          {
+            "type": "VariantTrack",
+            "configuration": "merlin.vcf_3",
+            "displays": [
+              {
+                "type": "LinearVariantDisplay",
+                "displayId": "merlin.vcf_3-LinearVariantDisplay",
+                "trackShowLabels": false,
+                "trackShowDescriptions": false,
+                "configuration": "merlin.vcf_3-LinearVariantDisplay"
+              }
+            ]
+          },
+          {
+            "type": "AlignmentsTrack",
+            "configuration": "merlin.cram_4",
+            "displays": [
+              {
+                "type": "LinearAlignmentsDisplay",
+                "displayId": "merlin.cram_4-LinearAlignmentsDisplay",
+                "configuration": "merlin.cram_4-LinearAlignmentsDisplay"
+              }
+            ]
+          },
+          {
+            "type": "AlignmentsTrack",
+            "configuration": "merlin-sample.bam_5",
+            "displays": [
+              {
+                "type": "LinearAlignmentsDisplay",
+                "displayId": "merlin-sample.bam_5-LinearAlignmentsDisplay",
+                "configuration": "merlin-sample.bam_5-LinearAlignmentsDisplay"
+              }
+            ]
+          },
+          {
+            "type": "MafTrack",
+            "configuration": "merlinlastz.maf_6",
+            "displays": [
+              {
+                "type": "LinearBasicDisplay",
+                "displayId": "merlinlastz.maf_6-LinearBasicDisplay",
+                "trackShowLabels": false,
+                "trackShowDescriptions": false,
+                "configuration": "merlinlastz.maf_6-LinearBasicDisplay"
+              }
+            ]
+          },
+          {
+            "type": "FeatureTrack",
+            "configuration": "merlin.blastxml_7",
+            "displays": [
+              {
+                "type": "LinearBasicDisplay",
+                "displayId": "merlin.blastxml_7-LinearBasicDisplay",
+                "trackShowLabels": false,
+                "trackShowDescriptions": false,
+                "configuration": "merlin.blastxml_7-LinearBasicDisplay"
+              }
+            ]
+          }
+        ],
+        "displayedRegions": [
+          {
+            "reversed": false,
+            "assemblyName": "Merlin",
+            "refName": "Merlin",
+            "start": 0,
+            "end": 172788
+          }
+        ]
+      },
+      {
+        "type": "LinearGenomeView",
+        "offsetPx": 0,
+        "bpPerPx": 50,
+        "minimized": false,
+        "tracks": [
+          {
+            "type": "HicTrack",
+            "configuration": "dm3test.cool_9",
+            "displays": [
+              {
+                "type": "LinearHicDisplay",
+                "configuration": "dm3test.cool_9-LinearHicDisplay"
+              }
+            ]
+          }
+        ],
+        "displayedRegions": [
+          {
+            "reversed": false,
+            "assemblyName": "dm3.fa",
+            "refName": "NT_037436.4",
+            "start": 0,
+            "end": 28110227
+          }
+        ]
+      },
+      {
+        "type": "LinearGenomeView",
+        "offsetPx": 0,
+        "bpPerPx": 50,
+        "minimized": false,
+        "tracks": [
+          {
+            "type": "SyntenyTrack",
+            "configuration": "peach-grape-map.paf_10",
+            "displays": [
+              {
+                "type": "LGVSyntenyDisplay",
+                "displayId": "peach-grape-map.paf_10-LinearBasicDisplay",
+                "configuration": "peach-grape-map.paf_10-LGVSyntenyDisplay"
+              }
+            ]
+          },
+          {
+            "type": "SyntenyTrack",
+            "configuration": "arabgrapepeach.paf_11",
+            "displays": [
+              {
+                "type": "LGVSyntenyDisplay",
+                "displayId": "arabgrapepeach.paf_11-LinearBasicDisplay",
+                "configuration": "arabgrapepeach.paf_11-LGVSyntenyDisplay"
+              }
+            ]
+          },
+          {
+            "type": "SyntenyTrack",
+            "configuration": "arabgrapepeach.paf_12",
+            "displays": [
+              {
+                "type": "LGVSyntenyDisplay",
+                "displayId": "arabgrapepeach.paf_12-LinearBasicDisplay",
+                "configuration": "arabgrapepeach.paf_12-LGVSyntenyDisplay"
+              }
+            ]
+          }
+        ],
+        "displayedRegions": [
+          {
+            "reversed": false,
+            "assemblyName": "Ppersica1.fa",
+            "refName": "Pp01",
+            "start": 0,
+            "end": 47851208
+          }
+        ]
+      },
+      {
+        "type": "LinearGenomeView",
+        "offsetPx": 0,
+        "bpPerPx": 50,
+        "minimized": false,
+        "tracks": [
+          {
+            "type": "HicTrack",
+            "configuration": "humanhic_13",
+            "displays": [
+              {
+                "type": "LinearHicDisplay",
+                "configuration": "humanhic_13-LinearHicDisplay"
+              }
+            ]
+          }
+        ],
+        "displayedRegions": [
+          {
+            "reversed": false,
+            "assemblyName": "hg38",
+            "refName": "1",
+            "start": 0,
+            "end": 248956422
+          }
+        ]
+      }
+    ]
+  },
+  "tracks": [
+    {
+      "type": "FeatureTrack",
+      "trackId": "merlin.gff3_0",
+      "name": "merlin.gff3_0",
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "adapter": {
+        "type": "Gff3TabixAdapter",
+        "gffGzLocation": {
+          "uri": "merlin.gff3_0.gz"
+        },
+        "index": {
+          "location": {
+            "uri": "merlin.gff3_0.gz.tbi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearBasicDisplay",
+          "displayId": "merlin.gff3_0-LinearBasicDisplay"
+        },
+        {
+          "type": "LinearArcDisplay",
+          "displayId": "merlin.gff3_0-LinearArcDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearBasicDisplay",
+        "displayId": "merlin.gff3_0-LinearBasicDisplay",
+        "trackShowLabels": false,
+        "trackShowDescriptions": false,
+        "configuration": "merlin.gff3_0-LinearBasicDisplay"
+      }
+    },
+    {
+      "type": "QuantitativeTrack",
+      "trackId": "merlin.bw_1",
+      "name": "merlin.bw_1",
+      "category": [
+        "Assembly properties"
+      ],
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "adapter": {
+        "type": "BigWigAdapter",
+        "bigWigLocation": {
+          "uri": "merlin.bw_1"
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearWiggleDisplay",
+          "displayId": "merlin.bw_1-LinearWiggleDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearWiggleDisplay",
+        "displayId": "merlin.bw_1-LinearWiggleDisplay",
+        "color": "#135560",
+        "autoscale": "globalsd",
+        "resolution": 1,
+        "summaryScoreMode": "whiskers",
+        "filled": false,
+        "scaleType": "linear",
+        "displayCrossHatches": false,
+        "configuration": "merlin.bw_1-LinearWiggleDisplay"
+      }
+    },
+    {
+      "type": "FeatureTrack",
+      "trackId": "test-6.bed_2",
+      "name": "test-6.bed_2",
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "adapter": {
+        "category": [
+          "Assembly properties"
+        ],
+        "type": "BedTabixAdapter",
+        "bedGzLocation": {
+          "uri": "test-6.bed_2.gz",
+          "columnNames": [
+            "chr",
+            "start",
+            "end",
+            "name",
+            "score"
+          ],
+          "scoreColumn": "score"
+        },
+        "index": {
+          "location": {
+            "uri": "test-6.bed_2.gz.tbi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearBasicDisplay",
+          "displayId": "test-6.bed_2-LinearBasicDisplay",
+          "renderer": {
+            "type": "SvgFeatureRenderer",
+            "color1": "jexl:customColor(feature)"
+          }
+        },
+        {
+          "type": "LinearPileupDisplay",
+          "displayId": "test-6.bed_2-LinearPileupDisplay"
+        },
+        {
+          "type": "LinearArcDisplay",
+          "displayId": "test-6.bed_2-LinearArcDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearBasicDisplay",
+        "displayId": "test-6.bed_2-LinearBasicDisplay",
+        "trackShowLabels": false,
+        "trackShowDescriptions": false,
+        "configuration": "test-6.bed_2-LinearBasicDisplay"
+      }
+    },
+    {
+      "type": "VariantTrack",
+      "trackId": "merlin.vcf_3",
+      "name": "merlin.vcf_3",
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "adapter": {
+        "type": "VcfTabixAdapter",
+        "vcfGzLocation": {
+          "uri": "merlin.vcf_3"
+        },
+        "index": {
+          "location": {
+            "uri": "merlin.vcf_3.tbi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearVariantDisplay",
+          "displayId": "merlin.vcf_3-LinearVariantDisplay"
+        },
+        {
+          "type": "ChordVariantDisplay",
+          "displayId": "merlin.vcf_3-ChordVariantDisplay"
+        },
+        {
+          "type": "LinearPairedArcDisplay",
+          "displayId": "merlin.vcf_3-LinearPairedArcDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearVariantDisplay",
+        "displayId": "merlin.vcf_3-LinearVariantDisplay",
+        "trackShowLabels": false,
+        "trackShowDescriptions": false,
+        "configuration": "merlin.vcf_3-LinearVariantDisplay"
+      }
+    },
+    {
+      "type": "AlignmentsTrack",
+      "trackId": "merlin.cram_4",
+      "name": "merlin.cram_4",
+      "category": [
+        "Assembly properties"
+      ],
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "adapter": {
+        "type": "CramAdapter",
+        "cramLocation": {
+          "uri": "merlin.cram_4"
+        },
+        "craiLocation": {
+          "uri": "merlin.cram_4.crai"
+        },
+        "sequenceAdapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "Merlin.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "Merlin.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "Merlin.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearAlignmentsDisplay",
+          "displayId": "merlin.cram_4-LinearAlignmentsDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearAlignmentsDisplay",
+        "displayId": "merlin.cram_4-LinearAlignmentsDisplay",
+        "configuration": "merlin.cram_4-LinearAlignmentsDisplay"
+      }
+    },
+    {
+      "type": "AlignmentsTrack",
+      "trackId": "merlin-sample.bam_5",
+      "name": "merlin-sample.bam_5",
+      "category": [
+        "Assembly properties"
+      ],
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "adapter": {
+        "type": "BamAdapter",
+        "bamLocation": {
+          "uri": "merlin-sample.bam_5"
+        },
+        "index": {
+          "location": {
+            "uri": "merlin-sample.bam_5.bai"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearAlignmentsDisplay",
+          "displayId": "merlin-sample.bam_5-LinearAlignmentsDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearAlignmentsDisplay",
+        "displayId": "merlin-sample.bam_5-LinearAlignmentsDisplay",
+        "configuration": "merlin-sample.bam_5-LinearAlignmentsDisplay"
+      }
+    },
+    {
+      "type": "MafTrack",
+      "trackId": "merlinlastz.maf_6",
+      "name": "merlinlastz.maf_6",
+      "category": [
+        "Assembly properties"
+      ],
+      "adapter": {
+        "type": "MafTabixAdapter",
+        "samples": [
+          "Merlin",
+          "Merlin1",
+          "Merlin2",
+          "Merlin3",
+          "Merlin4",
+          "Merlin5",
+          "Merlin6"
+        ],
+        "bedGzLocation": {
+          "uri": "merlinlastz.maf_6.sorted.bed.gz"
+        },
+        "index": {
+          "location": {
+            "uri": "merlinlastz.maf_6.sorted.bed.gz.tbi"
+          }
+        }
+      },
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "displays": [
+        {
+          "type": "LinearBasicDisplay",
+          "displayId": "merlinlastz.maf_6-LinearBasicDisplay"
+        },
+        {
+          "type": "LinearArcDisplay",
+          "displayId": "merlinlastz.maf_6-LinearArcDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearBasicDisplay",
+        "displayId": "merlinlastz.maf_6-LinearBasicDisplay",
+        "trackShowLabels": false,
+        "trackShowDescriptions": false,
+        "configuration": "merlinlastz.maf_6-LinearBasicDisplay"
+      }
+    },
+    {
+      "type": "FeatureTrack",
+      "trackId": "merlin.blastxml_7",
+      "name": "merlin.blastxml_7",
+      "assemblyNames": [
+        "Merlin"
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "adapter": {
+        "type": "Gff3TabixAdapter",
+        "gffGzLocation": {
+          "uri": "merlin.blastxml_7.gz"
+        },
+        "index": {
+          "location": {
+            "uri": "merlin.blastxml_7.gz.tbi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearBasicDisplay",
+          "displayId": "merlin.blastxml_7-LinearBasicDisplay"
+        },
+        {
+          "type": "LinearArcDisplay",
+          "displayId": "merlin.blastxml_7-LinearArcDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearBasicDisplay",
+        "displayId": "merlin.blastxml_7-LinearBasicDisplay",
+        "trackShowLabels": false,
+        "trackShowDescriptions": false,
+        "configuration": "merlin.blastxml_7-LinearBasicDisplay"
+      }
+    },
+    {
+      "type": "HicTrack",
+      "trackId": "dm3test.cool_9",
+      "name": "dm3test.cool_9",
+      "assemblyNames": [
+        "dm3.fa"
+      ],
+      "displays": [
+        {
+          "type": "LinearHicDisplay",
+          "displayId": "dm3test.cool_9-LinearHicDisplay"
+        }
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "adapter": {
+        "type": "HicAdapter",
+        "hicLocation": {
+          "uri": "dm3test.cool_9.hic"
+        }
+      }
+    },
+    {
+      "type": "SyntenyTrack",
+      "trackId": "peach-grape-map.paf_10",
+      "assemblyNames": [
+        "Ppersica1.fa",
+        "Vvinifera1.fa"
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "name": "peach-grape-map.paf_10",
+      "displays": [
+        {
+          "type": "LGVSyntenyDisplay",
+          "displayId": "peach-grape-map.paf_10-LGVSyntenyDisplay"
+        },
+        {
+          "type": "DotplotDisplay",
+          "displayId": "peach-grape-map.paf_10-DotplotDisplay"
+        },
+        {
+          "type": "LinearComparativeDisplay",
+          "displayId": "peach-grape-map.paf_10-LinearComparativeDisplay"
+        },
+        {
+          "type": "LinearBasicDisplay",
+          "displayId": "peach-grape-map.paf_10-LinearSyntenyDisplay"
+        }
+      ],
+      "adapter": {
+        "type": "PairwiseIndexedPAFAdapter",
+        "pifGzLocation": {
+          "uri": "peach-grape-map.paf_10"
+        },
+        "assemblyNames": [
+          "Ppersica1.fa",
+          "Vvinifera1.fa"
+        ],
+        "index": {
+          "location": {
+            "uri": "peach-grape-map.paf_10.tbi"
+          }
+        }
+      },
+      "style": {
+        "type": "LGVSyntenyDisplay",
+        "displayId": "peach-grape-map.paf_10-LinearBasicDisplay",
+        "configuration": "peach-grape-map.paf_10-LGVSyntenyDisplay"
+      }
+    },
+    {
+      "type": "SyntenyTrack",
+      "trackId": "arabgrapepeach.paf_11",
+      "assemblyNames": [
+        "Ppersica1.fa",
+        "arabidopsis.URI",
+        "Vvinifera1.URI"
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "name": "arabgrapepeach.paf_11",
+      "displays": [
+        {
+          "type": "LGVSyntenyDisplay",
+          "displayId": "arabgrapepeach.paf_11-LGVSyntenyDisplay"
+        },
+        {
+          "type": "DotplotDisplay",
+          "displayId": "arabgrapepeach.paf_11-DotplotDisplay"
+        },
+        {
+          "type": "LinearComparativeDisplay",
+          "displayId": "arabgrapepeach.paf_11-LinearComparativeDisplay"
+        },
+        {
+          "type": "LinearBasicDisplay",
+          "displayId": "arabgrapepeach.paf_11-LinearSyntenyDisplay"
+        }
+      ],
+      "adapter": {
+        "type": "PairwiseIndexedPAFAdapter",
+        "pifGzLocation": {
+          "uri": "arabgrapepeach.paf_11"
+        },
+        "assemblyNames": [
+          "Ppersica1.fa",
+          "arabidopsis.URI",
+          "Vvinifera1.URI"
+        ],
+        "index": {
+          "location": {
+            "uri": "arabgrapepeach.paf_11.tbi"
+          }
+        }
+      },
+      "style": {
+        "type": "LGVSyntenyDisplay",
+        "displayId": "arabgrapepeach.paf_11-LinearBasicDisplay",
+        "configuration": "arabgrapepeach.paf_11-LGVSyntenyDisplay"
+      }
+    },
+    {
+      "type": "SyntenyTrack",
+      "trackId": "arabgrapepeach.paf_12",
+      "assemblyNames": [
+        "Ppersica1.fa",
+        "Vvinifera1.fa"
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "name": "arabgrapepeach.paf_12",
+      "displays": [
+        {
+          "type": "LGVSyntenyDisplay",
+          "displayId": "arabgrapepeach.paf_12-LGVSyntenyDisplay"
+        },
+        {
+          "type": "DotplotDisplay",
+          "displayId": "arabgrapepeach.paf_12-DotplotDisplay"
+        },
+        {
+          "type": "LinearComparativeDisplay",
+          "displayId": "arabgrapepeach.paf_12-LinearComparativeDisplay"
+        },
+        {
+          "type": "LinearBasicDisplay",
+          "displayId": "arabgrapepeach.paf_12-LinearSyntenyDisplay"
+        }
+      ],
+      "adapter": {
+        "type": "PairwiseIndexedPAFAdapter",
+        "pifGzLocation": {
+          "uri": "arabgrapepeach.paf_12"
+        },
+        "assemblyNames": [
+          "Ppersica1.fa",
+          "Vvinifera1.fa"
+        ],
+        "index": {
+          "location": {
+            "uri": "arabgrapepeach.paf_12.tbi"
+          }
+        }
+      },
+      "style": {
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+        "displayId": "arabgrapepeach.paf_12-LinearBasicDisplay",
+        "configuration": "arabgrapepeach.paf_12-LGVSyntenyDisplay"
+      }
+    },
+    {
+      "type": "HicTrack",
+      "trackId": "humanhic_13",
+      "name": "humanhic_13",
+      "assemblyNames": [
+        "hg38"
+      ],
+      "displays": [
+        {
+          "type": "LinearHicDisplay",
+          "displayId": "humanhic_13-LinearHicDisplay"
+        }
+      ],
+      "category": [
+        "Assembly properties"
+      ],
+      "adapter": {
+        "type": "HicAdapter",
+        "hicLocation": {
+          "uri": "https://s3.amazonaws.com/igv.broadinstitute.org/data/hic/intra_nofrag_30.hic"
+        }
+      }
+    }
+  ],
+  "assemblies": [
+    {
+      "name": "Merlin",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "Merlin",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "Merlin.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "Merlin.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "Merlin.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "Merlin-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "Merlin-LinearGCContentDisplay"
+        }
+      ]
+    },
+    {
+      "name": "dm3.fa",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "dm3.fa",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "dm3.fa.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "dm3.fa.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "dm3.fa.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "dm3.fa-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "dm3.fa-LinearGCContentDisplay"
+        }
+      ]
+    },
+    {
+      "name": "Ppersica1.fa",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "Ppersica1.fa",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
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+          },
+          "faiLocation": {
+            "uri": "Ppersica1.fa.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "Ppersica1.fa.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "Ppersica1.fa-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "Ppersica1.fa-LinearGCContentDisplay"
+        }
+      ]
+    },
+    {
+      "name": "Vvinifera1.fa",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "Vvinifera1.fa",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "Vvinifera1.fa.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "Vvinifera1.fa.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "Vvinifera1.fa.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "Vvinifera1.fa-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "Vvinifera1.fa-LinearGCContentDisplay"
+        }
+      ]
+    },
+    {
+      "name": "arabidopsis.URI",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "arabidopsis.URI",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/arabidopsis.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/arabidopsis.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/arabidopsis.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "arabidopsis.URI-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "arabidopsis.URI-LinearGCContentDisplay"
+        }
+      ]
+    },
+    {
+      "name": "Vvinifera1.URI",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "Vvinifera1.URI",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/Vvinifera1.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/Vvinifera1.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/Vvinifera1.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "Vvinifera1.URI-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "Vvinifera1.URI-LinearGCContentDisplay"
+        }
+      ]
+    },
+    {
+      "name": "hg38",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "hg38",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/fasta/GRCh38.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/fasta/GRCh38.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/fasta/GRCh38.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "hg38-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "hg38-LinearGCContentDisplay"
+        }
+      ]
+    }
+  ]
+}
\ No newline at end of file