config.json5

{
    reknitJobs: [
        {
            infile: "%maxwell/docs/Mollusca.html",
            outfile: "%maxwell/docs/Mollusca-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Mollusca.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 47115,
                        taxonName: "Mollusca"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Mollusca.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Annelida.html",
            outfile: "%maxwell/docs/Annelida-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Annelida.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 47491,
                        taxonName: "Annelida"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Annelida.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Brachiopoda.html",
            outfile: "%maxwell/docs/Brachiopoda-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Brachiopoda.json.lz4",
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Brachiopoda.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Bryozoa.html",
            outfile: "%maxwell/docs/Bryozoa-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Bryozoa.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 68104,
                        taxonName: "Bryozoa"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Bryozoa.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Chaetognatha.html",
            outfile: "%maxwell/docs/Chaetognatha-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Chaetognatha.json.lz4",
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Chaetognatha.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Cnidaria.html",
            outfile: "%maxwell/docs/Cnidaria-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Cnidaria.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 47534,
                        taxonName: "Cnidaria"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Cnidaria.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Crustacea.html",
            outfile: "%maxwell/docs/Crustacea-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Crustacea.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 85493,
                        taxonName: "Crustacea"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Crustacea.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Ctenophora.html",
            outfile: "%maxwell/docs/Ctenophora-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Ctenophora.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 51508,
                        taxonName: "Ctenophore"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Ctenophora.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Echinodermata.html",
            outfile: "%maxwell/docs/Echinodermata-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Echinodermata.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 47549,
                        taxonName: "Echinodermata"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Echinodermata.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Entoprocta.html",
            outfile: "%maxwell/docs/Entoprocta-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Entoprocta.json.lz4",
                        // Special exception to show Barentsia sp.
                        checklistRanks: ["family", "phylum", "class", "order", "genus", "species"]
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Entoprocta.json.lz4",
                        checklistRanks: ["family", "phylum", "class", "order", "genus", "species"]
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Fishes.html",
            outfile: "%maxwell/docs/Fishes-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Fishes.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 47178, // Actually Actinopterygii, which all are except for 3 Elasmobranchii
                        taxonName: "Fish"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Fishes.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Mammalia.html",
            outfile: "%maxwell/docs/Mammalia-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Mammalia.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 925158, // Actually Whippomorpha which half are, the rest are Mustelidae, Phocidae, etc
                        taxonName: "Mammalia"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Mammalia.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Nemertea.html",
            outfile: "%maxwell/docs/Nemertea-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Nemertea.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 51280,
                        taxonName: "Nemertea"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Nemertea.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Phoronida.html",
            outfile: "%maxwell/docs/Phoronida-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Phoronida.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 48051,
                        taxonName: "Phoronida"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Phoronida.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Platyhelminthes.html",
            outfile: "%maxwell/docs/Platyhelminthes-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Platyhelminthes.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 52319,
                        taxonName: "Platyhelminthes"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Platyhelminthes.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Sipuncula.html",
            outfile: "%maxwell/docs/Sipuncula-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Sipuncula.json.lz4",
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Sipuncula.json.lz4",
                    }
                }
            }
        }, {
            infile: "%maxwell/docs/Porifera.html",
            outfile: "%maxwell/docs/Porifera-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Porifera.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 48824,
                        taxonName: "Porifera"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Porifera.json.lz4",
                    }
                }
            },
        }, {
            infile: "%maxwell/docs/Tunicata.html",
            outfile: "%maxwell/docs/Tunicata-Reknitted.html",
            options: {
                template: "%maxwell/src/html/template.html",
                paneHandlers: {
                    Diversity: {
                        type: "maxwell.bioblitzDiversityPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Diversity-Tunicata.json.lz4",
                    },
                    TopContributions: {
                        type: "maxwell.iNatComponentsPaneHandler",
                        taxonId: 130868,
                        taxonName: "Tunicata"
                    },
                    Status: {
                        type: "maxwell.bioblitzStatusPane",
                        vizFile: "%resourceBase/data/Galiano-2023-Status-Tunicata.json.lz4",
                    }
                }
            }
        }
    ],
    transforms: [{
        file: "%maxwell/src/js/reknit-bioblitz.js",
        func: "addHeader"
    }],
    copyJobs: [ {
        source: "%maxwell/src/js/client/*.js",
        target: "%maxwell/docs/js/"
    }, {
        source: "%infusion/dist/infusion-framework.js",
        target: "%maxwell/docs/js/infusion-framework.js",
        replaceSource: "sourceMappingURL=infusion-framework.js.map",
        replaceTarget: "sourceMappingURL=../../node_modules/infusion/dist/infusion-framework.js.map"
    }, { // TODO: Extend module-relative addressing to 3rd-party modules
        source: "%maxwell/node_modules/@imerss/inat-components/dist/standalone.min.js",
        target: "%maxwell/docs/js/inat-components-standalone.min.js"
    }, {
        source: "%maxwell/src/css/*.css",
        target: "%maxwell/docs/css"
    }, {
        source: "%imerss-bioinfo/docs/js/imerss-viz-all.js",
        target: "%maxwell/docs/js/imerss-viz-all.js"
    }, {
        source: "%imerss-bioinfo/docs/js/imerss-viz-all.js.map",
        target: "%maxwell/docs/js/imerss-viz-all.js.map",
        replaceSource: "\"sourceRoot\":\"../..\"",
        replaceTarget: "\"sourceRoot\":\"../../../bagatelle/\""
    }, {
        source: "%imerss-bioinfo/src/client/img/Arrow-up.svg",
        target: "%maxwell/docs/img/Arrow-up.svg"
    }, {
        source: "%imerss-bioinfo/src/client/img/Arrow-down.svg",
        target: "%maxwell/docs/img/Arrow-down.svg"
    }, {
        source: "%imerss-bioinfo/src/client/img/up-arrow.svg",
        target: "%maxwell/docs/img/up-arrow.svg"
    }, {
        source: "%imerss-bioinfo/src/client/img/external-link.svg",
        target: "%maxwell/docs/img/external-link.svg"
    }, {
        source: "%imerss-bioinfo/docs/css/imerss-viz-all.css",
        target: "%maxwell/docs/css/imerss-viz-all.css"
    }, {
        source: "%imerss-bioinfo/docs/css/xetthecum-shared.css",
        target: "%maxwell/docs/css/xetthecum-shared.css"
    }, {
        source: "%imerss-bioinfo/src/client/json/emptyPhyloMap.json",
        target: "%maxwell/docs/json/phyloMap.json"
    }, {
        source: "%maxwell/src/html/imerss-viz-scrolly.html",
        target: "%maxwell/docs/html/imerss-viz-scrolly.html"
    }, {
        source: "%maxwell/src/html/pane-info.html",
        target: "%maxwell/docs/html/pane-info.html"
    }, {
        source: "%maxwell/viz_data/*.lz4",
        target: "%maxwell/docs/data"
    }]
}