justaddcoffee/kg-emerging-viruses

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File jquery-3.5.1.js has 6902 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*!
 * jQuery JavaScript Library v3.5.1
 * https://jquery.com/
 *
 * Includes Sizzle.js
Severity: Major
Found in docs/_static/jquery-3.5.1.js - About 2 wks to fix

    Function Sizzle has 1510 lines of code (exceeds 25 allowed). Consider refactoring.
    Open

    ( function( window ) {
    var i,
        support,
        Expr,
        getText,
    Severity: Major
    Found in docs/_static/jquery-3.5.1.js - About 1 wk to fix

      Function parse_doc_fields has a Cognitive Complexity of 85 (exceeds 5 allowed). Consider refactoring.
      Open

          def parse_doc_fields(
              self, record: dict, allowed_properties: set, remap: Optional[dict] = None
          ):
              """Parse a record from the API.
      
      
      Severity: Minor
      Found in kg_covid_19/transform_utils/chembl/chembl_transform.py - 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

      File underscore-1.3.1.js has 665 lines of code (exceeds 250 allowed). Consider refactoring.
      Open

      //     Underscore.js 1.3.1
      //     (c) 2009-2012 Jeremy Ashkenas, DocumentCloud Inc.
      //     Underscore is freely distributable under the MIT license.
      //     Portions of Underscore are inspired or borrowed from Prototype,
      //     Oliver Steele's Functional, and John Resig's Micro-Templating.
      Severity: Major
      Found in docs/_static/underscore-1.3.1.js - About 1 day to fix

        Function setDocument has 262 lines of code (exceeds 25 allowed). Consider refactoring.
        Open

        setDocument = Sizzle.setDocument = function( node ) {
            var hasCompare, subWindow,
                doc = node ? node.ownerDocument || node : preferredDoc;
        
            // Return early if doc is invalid or already selected
        Severity: Major
        Found in docs/_static/jquery-3.5.1.js - About 1 day to fix

          Function ajax has 257 lines of code (exceeds 25 allowed). Consider refactoring.
          Open

              ajax: function( url, options ) {
          
                  // If url is an object, simulate pre-1.5 signature
                  if ( typeof url === "object" ) {
                      options = url;
          Severity: Major
          Found in docs/_static/jquery-3.5.1.js - About 1 day to fix

            Function Stemmer has a Cognitive Complexity of 58 (exceeds 5 allowed). Consider refactoring.
            Open

            var Stemmer = function() {
            
              var step2list = {
                ational: 'ate',
                tional: 'tion',
            Severity: Minor
            Found in docs/_static/language_data.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 Deferred has 178 lines of code (exceeds 25 allowed). Consider refactoring.
            Open

                Deferred: function( func ) {
                    var tuples = [
            
                            // action, add listener, callbacks,
                            // ... .then handlers, argument index, [final state]
            Severity: Major
            Found in docs/_static/jquery-3.5.1.js - About 7 hrs to fix

              Function performObjectSearch has a Cognitive Complexity of 45 (exceeds 5 allowed). Consider refactoring.
              Open

                performObjectSearch : function(object, otherterms) {
                  var filenames = this._index.filenames;
                  var docnames = this._index.docnames;
                  var objects = this._index.objects;
                  var objnames = this._index.objnames;
              Severity: Minor
              Found in docs/_static/searchtools.js - About 6 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 query has a Cognitive Complexity of 43 (exceeds 5 allowed). Consider refactoring.
              Open

                query : function(query) {
                  var i;
              
                  // stem the searchterms and add them to the correct list
                  var stemmer = new Stemmer();
              Severity: Minor
              Found in docs/_static/searchtools.js - About 6 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

              File scibite_cord.py has 420 lines of code (exceeds 250 allowed). Consider refactoring.
              Open

              """The SciBite CORD transform."""
              
              import gzip
              import json
              import os
              Severity: Minor
              Found in kg_covid_19/transform_utils/scibite_cord/scibite_cord.py - About 6 hrs to fix

                Function Stemmer has 151 lines of code (exceeds 25 allowed). Consider refactoring.
                Open

                var Stemmer = function() {
                
                  var step2list = {
                    ational: 'ate',
                    tional: 'tion',
                Severity: Major
                Found in docs/_static/language_data.js - About 6 hrs to fix

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

                    performTermsSearch : function(searchterms, excluded, terms, titleterms) {
                      var docnames = this._index.docnames;
                      var filenames = this._index.filenames;
                      var titles = this._index.titles;
                  
                  
                  Severity: Minor
                  Found in docs/_static/searchtools.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 defaultPrefilter has 122 lines of code (exceeds 25 allowed). Consider refactoring.
                  Open

                  function defaultPrefilter( elem, props, opts ) {
                      var prop, value, toggle, hooks, oldfire, propTween, restoreDisplay, display,
                          isBox = "width" in props || "height" in props,
                          anim = this,
                          orig = {},
                  Severity: Major
                  Found in docs/_static/jquery-3.5.1.js - About 4 hrs to fix

                    File searchtools.js has 370 lines of code (exceeds 250 allowed). Consider refactoring.
                    Open

                    /*
                     * searchtools.js
                     * ~~~~~~~~~~~~~~~~
                     *
                     * Sphinx JavaScript utilities for the full-text search.
                    Severity: Minor
                    Found in docs/_static/searchtools.js - About 4 hrs to fix

                      Function Callbacks has 121 lines of code (exceeds 25 allowed). Consider refactoring.
                      Open

                      jQuery.Callbacks = function( options ) {
                      
                          // Convert options from String-formatted to Object-formatted if needed
                          // (we check in cache first)
                          options = typeof options === "string" ?
                      Severity: Major
                      Found in docs/_static/jquery-3.5.1.js - About 4 hrs to fix

                        Function query has 118 lines of code (exceeds 25 allowed). Consider refactoring.
                        Open

                          query : function(query) {
                            var i;
                        
                            // stem the searchterms and add them to the correct list
                            var stemmer = new Stemmer();
                        Severity: Major
                        Found in docs/_static/searchtools.js - About 4 hrs to fix

                          Function parse_cooccurrence_record has a Cognitive Complexity of 31 (exceeds 5 allowed). Consider refactoring.
                          Open

                              def parse_cooccurrence_record(
                                  self, node_handle: Any, edge_handle: Any, record: Dict
                              ) -> None:
                                  """Parse term-cooccurrences.
                          
                          
                          Severity: Minor
                          Found in kg_covid_19/transform_utils/scibite_cord/scibite_cord.py - About 4 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

                          File chembl_transform.py has 350 lines of code (exceeds 250 allowed). Consider refactoring.
                          Open

                          """Transform class for CHEMBL data."""
                          
                          import json
                          from typing import Dict, List, Optional, Set
                          
                          
                          Severity: Minor
                          Found in kg_covid_19/transform_utils/chembl/chembl_transform.py - About 4 hrs to fix

                            Function stemWord has 109 lines of code (exceeds 25 allowed). Consider refactoring.
                            Open

                              this.stemWord = function (w) {
                                var stem;
                                var suffix;
                                var firstch;
                                var origword = w;
                            Severity: Major
                            Found in docs/_static/language_data.js - About 4 hrs to fix
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