File circosJS@1.7.0.js has 1590 lines of code (exceeds 1000 allowed). Consider refactoring.

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var circosJS,
    indexOf = [].indexOf || function(item) { for (var i = 0, l = this.length; i < l; i++) { if (i in this && this[i] === item) return i; } return -1; };

if (typeof Object.assign !== 'function') {
    Object.assign = function(target) {

Function Track has a Cognitive Complexity of 61 (exceeds 5 allowed). Consider refactoring.

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circosJS.Track = function() {
    this.build = function(instance, conf, data) {
        this.dispatch = d3.dispatch('mouseover', 'mouseout');
        this.loadData(data, instance);
        this.conf = this.processConf(conf, this.defaultConf, this.meta, instance, this);

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Function Track has 214 lines of code (exceeds 25 allowed). Consider refactoring.

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circosJS.Track = function() {
    this.build = function(instance, conf, data) {
        this.dispatch = d3.dispatch('mouseover', 'mouseout');
        this.loadData(data, instance);
        this.conf = this.processConf(conf, this.defaultConf, this.meta, instance, this);

Function Stack has a Cognitive Complexity of 52 (exceeds 5 allowed). Consider refactoring.

Open

circosJS.Stack = function() {
    circosJS.Track.call(this);
    this.parseData = circosJS.parseSpanValueData;
    this.build = function(instance, conf, data, rules, backgrounds) {
        this.loadData(data, instance);

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Function Stack has 158 lines of code (exceeds 25 allowed). Consider refactoring.

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circosJS.Stack = function() {
    circosJS.Track.call(this);
    this.parseData = circosJS.parseSpanValueData;
    this.build = function(instance, conf, data, rules, backgrounds) {
        this.loadData(data, instance);

Function graphIt has 140 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    graphIt($queryDiv, $graphDiv, index, howMany, opts, inhits) {
    /* barHeight: Height of each hit track.
     * legend: Height reserved for the overview legend.
     * margin: Margin around the svg element.
     */

Function Chord has 108 lines of code (exceeds 25 allowed). Consider refactoring.

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circosJS.Chord = function() {
    circosJS.Track.call(this);
    this.parseData = circosJS.parseChordData;
    this.applyRules = function(rules, data) {
        var datum, l, len, results, rule;

Function setupTooltip has 102 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    setupTooltip() {
        var selected = {};
        $('.circos-distribution').on(
            'click',
            _.bind(function (event) {

Function updateState has a Cognitive Complexity of 26 (exceeds 5 allowed). Consider refactoring.

Open

    updateState() {
        var results = [];
        var numHSPsProcessed = 0;
        while (this.nextQuery < this.state.queries.length) {
            var query = this.state.queries[this.nextQuery];

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Function get_styles has a Cognitive Complexity of 25 (exceeds 5 allowed). Consider refactoring.

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var get_styles = function () {
    var styles = '';

    for (var i = 0; i < document.styleSheets.length; i++) {
        (function process_ss(ss) {

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Function Grapher has 89 lines of code (exceeds 25 allowed). Consider refactoring.

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export default function Grapher(Graph) {
    return class extends React.Component {
        constructor(props) {
            super(props);
            this.name = Graph.name();

Function updateState has 81 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    updateState() {
        var results = [];
        var numHSPsProcessed = 0;
        while (this.nextQuery < this.state.queries.length) {
            var query = this.state.queries[this.nextQuery];

Function graphControls has 78 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    graphControls($queryDiv, $graphDiv, isInit, opts, hits) {
        var MIN_HITS_TO_SHOW = 20;

        var totalHits, shownHits, lessButton, moreButton;

Function renderLayoutTicks has 74 lines of code (exceeds 25 allowed). Consider refactoring.

Open

circosJS.renderLayoutTicks = function(conf, layout, d3, instance) {
    var blockTicks, displayLabel, ticks;
    blockTicks = function(d) {
        var k,space;
        k = (d.end - d.start) / d.len;

Function componentDidMount has 72 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    componentDidMount() {
        var self = this;
        var FASTA_FORMAT = /^>/;

        $(document).ready(function () {

Function downloadsPanelJSX has 71 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    downloadsPanelJSX() {
        return (
            <div className="downloads">
                <div className="section-header-sidebar">
                    <h4>

Function construct_layout has 64 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    construct_layout() {
        var hsp_count = 0;
        var query_count = 0;
        var num_karyotype = 32;
        var num_queries = this.queries.length;

Function removeTracks has a Cognitive Complexity of 18 (exceeds 5 allowed). Consider refactoring.

Open

circosJS.Core.prototype.removeTracks = function(trackIds) {
    var id, l, len, ref, store, svg, trackId, type;
    svg = d3.select(this.conf.container);
    ref = this.tracks;
    for (type in ref) {

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Function drawLegend has 60 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    drawLegend() {
        this.ratioHSP = [];
        _.each(
            this.chords_arr,
            _.bind(function (obj) {

Function render has 56 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    render() {
        var methods = this.state.methods;
        var method = methods[0];
        var multi = methods.length > 1;