grnsight/server/controllers/custom-workbook-controller.js

Web app and service for visualizing models of gene regulatory networks

/* eslint-disable camelcase */
var helpers = require(__dirname + "/helpers");

var processCustomWorkbook = function (path, res, app, workbook) {
    helpers.attachCorsHeader(res, app);
    helpers.attachFileHeaders(res, path);
    return workbook.errors.length === 0
        ? // If all looks well, return the workbook with an all clear
        res.json(workbook)
        : // If all does not look well, return the workbook with an error 400
        res.status(400).json(workbook);
};

const createCustomWorkbook = (genesString, linksString, networkType) => {
    const g = genesString.split(",");
    let genes = g.map(gene => {
        return {name: gene};
    });
    let links = linksString === "" ? [] : linksString.split(",").map( link => {
        link = link.split("->");
        return {
            source: g.indexOf(link[0]),
            target: g.indexOf(link[1]),
            value:1,
            type:"arrowhead",
            stroke: "black"
        };
    });
    let positiveWeights = Array(links.length).fill(1);
    return  {
        genes,
        links,
        errors: [],
        warnings: [],
        positiveWeights,
        negativeWeights: [],
        sheetType: "unweighted",
        network: {
            genes,
            links,
            errors: [],
            warnings: [],
            positiveWeights,
        },
        meta: {
            data: {
                species: "Saccharomyces cerevisiae",
                taxon_id: 559292,
                workbookType: networkType
            }
        },
        meta2: {},
        twoColumnSheets: {
        },
        expression: {
        }
    };
};

module.exports = function (app) {
    if (app) {

        // Load Custom Workbook
        app.get("/upload-custom-workbook", function (req, res) {
            let workbook = createCustomWorkbook(req.query.genes, req.query.links, req.query.networkType);
            return processCustomWorkbook(req.query.name, res, app, workbook);
        });
    }
};