wurmlab/sequenceserver

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

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);
Severity: Minor
Found in public/js/circosjs.js - About 1 day to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function HSP has 220 lines of code (exceeds 25 allowed). Consider refactoring.
Open

export default function HSP(props) {
  const hsp = props.hsp;
  const hspRef = createRef();
  const printing = useDetectPrint();
  const [chars, setChars] = useState(0)
Severity: Major
Found in public/js/hsp.js - About 1 day to fix

    Function Track has 215 lines of code (exceeds 25 allowed). Consider refactoring.
    Open

    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);
    Severity: Major
    Found in public/js/circosjs.js - About 1 day to fix

      Function HSP has a Cognitive Complexity of 36 (exceeds 5 allowed). Consider refactoring.
      Open

      export default function HSP(props) {
        const hsp = props.hsp;
        const hspRef = createRef();
        const printing = useDetectPrint();
        const [chars, setChars] = useState(0)
      Severity: Minor
      Found in public/js/hsp.js - About 5 hrs to fix

      Cognitive Complexity

      Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

      A method's cognitive complexity is based on a few simple rules:

      • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
      • Code is considered more complex for each "break in the linear flow of the code"
      • Code is considered more complex when "flow breaking structures are nested"

      Further reading

      Function graphIt has 131 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.
           */
      Severity: Major
      Found in public/js/hits_overview.js - About 5 hrs to fix

        Function Chord has 123 lines of code (exceeds 25 allowed). Consider refactoring.
        Open

        circosJS.Chord = function() {
            circosJS.Track.call(this);
            this.parseData = circosJS.parseChordData;
            this.applyRules = function(rules, data) {
                var datum, l, len, results, rule;
        Severity: Major
        Found in public/js/circosjs.js - About 4 hrs to fix

          Function downloadsPanelJSX has 116 lines of code (exceeds 25 allowed). Consider refactoring.
          Open

              downloadsPanelJSX() {
                  return (
                      <div className="downloads">
                          <div className="pl-px table mb-0 w-full">
                              <h4 className="text-sm font-bold mb-0 mt-2.5">
          Severity: Major
          Found in public/js/sidebar.js - About 4 hrs to fix

            Function setupTooltip has 115 lines of code (exceeds 25 allowed). Consider refactoring.
            Open

                setupTooltip() {
                    var selected = {};
                    $('.circos-distribution').on(
                        'click',
                        _.bind(function (event) {
            Severity: Major
            Found in public/js/circos.js - About 4 hrs to fix

              Function Grapher has 101 lines of code (exceeds 25 allowed). Consider refactoring.
              Open

              export default function Grapher(Graph) {
                  return function Component(props) {
                      const alwaysShowName = Graph.alwaysShowName === undefined ? false : Graph.alwaysShowName();
                      const printing = useDetectPrint();
                      const name = Graph.name(props);
              Severity: Major
              Found in public/js/grapher.js - About 4 hrs to fix

                Function Component has 99 lines of code (exceeds 25 allowed). Consider refactoring.
                Open

                    return function Component(props) {
                        const alwaysShowName = Graph.alwaysShowName === undefined ? false : Graph.alwaysShowName();
                        const printing = useDetectPrint();
                        const name = Graph.name(props);
                        const [width, setWidth] = useState(window.innerWidth);
                Severity: Major
                Found in public/js/grapher.js - About 3 hrs to fix

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

                  var get_styles = function () {
                      var styles = '';
                  
                      for (var i = 0; i < document.styleSheets.length; i++) {
                          (function process_ss(ss) {
                  Severity: Minor
                  Found in public/js/svgExporter.js - About 3 hrs to fix

                  Cognitive Complexity

                  Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

                  A method's cognitive complexity is based on a few simple rules:

                  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
                  • Code is considered more complex for each "break in the linear flow of the code"
                  • Code is considered more complex when "flow breaking structures are nested"

                  Further reading

                  Function Grapher has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
                  Open

                  export default function Grapher(Graph) {
                      return function Component(props) {
                          const alwaysShowName = Graph.alwaysShowName === undefined ? false : Graph.alwaysShowName();
                          const printing = useDetectPrint();
                          const name = Graph.name(props);
                  Severity: Minor
                  Found in public/js/grapher.js - About 3 hrs to fix

                  Cognitive Complexity

                  Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

                  A method's cognitive complexity is based on a few simple rules:

                  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
                  • Code is considered more complex for each "break in the linear flow of the code"
                  • Code is considered more complex when "flow breaking structures are nested"

                  Further reading

                  Function sharingPanelJSX has 79 lines of code (exceeds 25 allowed). Consider refactoring.
                  Open

                      sharingPanelJSX() {
                          return (
                              <div className="sharing-panel">
                                  <div className="pl-px table mb-0 w-full">
                                      <h4 className="text-sm font-bold mb-0 mt-2.5">
                  Severity: Major
                  Found in public/js/sidebar.js - About 3 hrs to fix

                    Function graphControls has 76 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;
                    
                    
                    Severity: Major
                    Found in public/js/hits_overview.js - About 3 hrs to fix

                      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;
                      Severity: Major
                      Found in public/js/circosjs.js - About 2 hrs to fix

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

                            componentDidMount() {
                                var self = this;
                                var FASTA_FORMAT = /^>/;
                        
                                $(document).ready(function () {
                        Severity: Major
                        Found in public/js/dnd.js - About 2 hrs to fix

                          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) {
                          Severity: Minor
                          Found in public/js/circosjs.js - About 2 hrs to fix

                          Cognitive Complexity

                          Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

                          A method's cognitive complexity is based on a few simple rules:

                          • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
                          • Code is considered more complex for each "break in the linear flow of the code"
                          • Code is considered more complex when "flow breaking structures are nested"

                          Further reading

                          Function drawLegend has 59 lines of code (exceeds 25 allowed). Consider refactoring.
                          Open

                              drawLegend() {
                                  this.ratioHSP = [];
                                  _.each(
                                      this.chords_arr,
                                      _.bind(function (obj) {
                          Severity: Major
                          Found in public/js/circos.js - About 2 hrs to fix

                            Function pollPeriodically has 57 lines of code (exceeds 25 allowed). Consider refactoring.
                            Open

                                pollPeriodically(path, callback, errCallback) {
                                var intervals = [200, 400, 800, 1200, 2000, 3000, 5000];
                                    function poll() {
                                        fetch(path)
                                            .then(response => {
                            Severity: Major
                            Found in public/js/report.js - About 2 hrs to fix

                              Function Layout has 55 lines of code (exceeds 25 allowed). Consider refactoring.
                              Open

                              circosJS.Layout = function(conf, data) {
                                  var block_nb, gap, k, offset, ref, ref1, size, v;
                                  if (data == null) {
                                      circosJS.log(2, 'no layout data', '');
                                  }
                              Severity: Major
                              Found in public/js/circosjs.js - About 2 hrs to fix
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