wurmlab/sequenceserver

View on GitHub
public/js/circos.js

Summary

Maintainability
F
6 days
Test Coverage

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 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 calculate_multipliers has 43 lines of code (exceeds 25 allowed). Consider refactoring.
      Open

          calculate_multipliers() {
              var sum_query_length = 0;
              var sum_hit_length = 0;
              _.each(
                  this.query_arr,
      Severity: Minor
      Found in public/js/circos.js - About 1 hr to fix

        Function ratioCalculate has a Cognitive Complexity of 10 (exceeds 5 allowed). Consider refactoring.
        Open

            ratioCalculate(value, min, max, scope, reverse, logScale) {
                var fraction, scaleLogBase, x;
                scaleLogBase = logScale ? 2.3 : 1;
                if (
                    min === max ||
        Severity: Minor
        Found in public/js/circos.js - About 1 hr 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

        Unexpected console statement.
        Open

                console.log(
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        Unexpected console statement.
        Open

                    console.log('no record found ' + id);
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        Unexpected console statement.
        Open

                console.log('label edits');
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        'label' is assigned a value but never used.
        Open

                        var label = obj.label;
        Severity: Minor
        Found in public/js/circos.js by eslint

        Disallow Unused Variables (no-unused-vars)

        Variables that are declared and not used anywhere in the code are most likely an error due to incomplete refactoring. Such variables take up space in the code and can lead to confusion by readers.

        Rule Details

        This rule is aimed at eliminating unused variables, functions, and parameters of functions.

        A variable is considered to be used if any of the following are true:

        • It represents a function that is called (doSomething())
        • It is read (var y = x)
        • It is passed into a function as an argument (doSomething(x))
        • It is read inside of a function that is passed to another function (doSomething(function() { foo(); }))

        A variable is not considered to be used if it is only ever assigned to (var x = 5) or declared.

        Examples of incorrect code for this rule:

        /*eslint no-unused-vars: "error"*/
        /*global some_unused_var*/
        
        // It checks variables you have defined as global
        some_unused_var = 42;
        
        var x;
        
        // Write-only variables are not considered as used.
        var y = 10;
        y = 5;
        
        // A read for a modification of itself is not considered as used.
        var z = 0;
        z = z + 1;
        
        // By default, unused arguments cause warnings.
        (function(foo) {
            return 5;
        })();
        
        // Unused recursive functions also cause warnings.
        function fact(n) {
            if (n < 2) return 1;
            return n * fact(n - 1);
        }
        
        // When a function definition destructures an array, unused entries from the array also cause warnings.
        function getY([x, y]) {
            return y;
        }

        Examples of correct code for this rule:

        /*eslint no-unused-vars: "error"*/
        
        var x = 10;
        alert(x);
        
        // foo is considered used here
        myFunc(function foo() {
            // ...
        }.bind(this));
        
        (function(foo) {
            return foo;
        })();
        
        var myFunc;
        myFunc = setTimeout(function() {
            // myFunc is considered used
            myFunc();
        }, 50);
        
        // Only the second argument from the descructured array is used.
        function getY([, y]) {
            return y;
        }

        exported

        In environments outside of CommonJS or ECMAScript modules, you may use var to create a global variable that may be used by other scripts. You can use the /* exported variableName */ comment block to indicate that this variable is being exported and therefore should not be considered unused.

        Note that /* exported */ has no effect for any of the following:

        • when the environment is node or commonjs
        • when parserOptions.sourceType is module
        • when ecmaFeatures.globalReturn is true

        The line comment // exported variableName will not work as exported is not line-specific.

        Examples of correct code for /* exported variableName */ operation:

        /* exported global_var */
        
        var global_var = 42;

        Options

        This rule takes one argument which can be a string or an object. The string settings are the same as those of the vars property (explained below).

        By default this rule is enabled with all option for variables and after-used for arguments.

        {
            "rules": {
                "no-unused-vars": ["error", { "vars": "all", "args": "after-used", "ignoreRestSiblings": false }]
            }
        }

        vars

        The vars option has two settings:

        • all checks all variables for usage, including those in the global scope. This is the default setting.
        • local checks only that locally-declared variables are used but will allow global variables to be unused.

        vars: local

        Examples of correct code for the { "vars": "local" } option:

        /*eslint no-unused-vars: ["error", { "vars": "local" }]*/
        /*global some_unused_var */
        
        some_unused_var = 42;

        varsIgnorePattern

        The varsIgnorePattern option specifies exceptions not to check for usage: variables whose names match a regexp pattern. For example, variables whose names contain ignored or Ignored.

        Examples of correct code for the { "varsIgnorePattern": "[iI]gnored" } option:

        /*eslint no-unused-vars: ["error", { "varsIgnorePattern": "[iI]gnored" }]*/
        
        var firstVarIgnored = 1;
        var secondVar = 2;
        console.log(secondVar);

        args

        The args option has three settings:

        • after-used - only the last argument must be used. This allows you, for instance, to have two named parameters to a function and as long as you use the second argument, ESLint will not warn you about the first. This is the default setting.
        • all - all named arguments must be used.
        • none - do not check arguments.

        args: after-used

        Examples of incorrect code for the default { "args": "after-used" } option:

        /*eslint no-unused-vars: ["error", { "args": "after-used" }]*/
        
        // 1 error
        // "baz" is defined but never used
        (function(foo, bar, baz) {
            return bar;
        })();

        Examples of correct code for the default { "args": "after-used" } option:

        /*eslint no-unused-vars: ["error", {"args": "after-used"}]*/
        
        (function(foo, bar, baz) {
            return baz;
        })();

        args: all

        Examples of incorrect code for the { "args": "all" } option:

        /*eslint no-unused-vars: ["error", { "args": "all" }]*/
        
        // 2 errors
        // "foo" is defined but never used
        // "baz" is defined but never used
        (function(foo, bar, baz) {
            return bar;
        })();

        args: none

        Examples of correct code for the { "args": "none" } option:

        /*eslint no-unused-vars: ["error", { "args": "none" }]*/
        
        (function(foo, bar, baz) {
            return bar;
        })();

        ignoreRestSiblings

        The ignoreRestSiblings option is a boolean (default: false). Using a Rest Property it is possible to "omit" properties from an object, but by default the sibling properties are marked as "unused". With this option enabled the rest property's siblings are ignored.

        Examples of correct code for the { "ignoreRestSiblings": true } option:

        /*eslint no-unused-vars: ["error", { "ignoreRestSiblings": true }]*/
        // 'type' is ignored because it has a rest property sibling.
        var { type, ...coords } = data;

        argsIgnorePattern

        The argsIgnorePattern option specifies exceptions not to check for usage: arguments whose names match a regexp pattern. For example, variables whose names begin with an underscore.

        Examples of correct code for the { "argsIgnorePattern": "^_" } option:

        /*eslint no-unused-vars: ["error", { "argsIgnorePattern": "^_" }]*/
        
        function foo(x, _y) {
            return x + 1;
        }
        foo();

        caughtErrors

        The caughtErrors option is used for catch block arguments validation.

        It has two settings:

        • none - do not check error objects. This is the default setting.
        • all - all named arguments must be used.

        caughtErrors: none

        Not specifying this rule is equivalent of assigning it to none.

        Examples of correct code for the { "caughtErrors": "none" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrors": "none" }]*/
        
        try {
            //...
        } catch (err) {
            console.error("errors");
        }

        caughtErrors: all

        Examples of incorrect code for the { "caughtErrors": "all" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrors": "all" }]*/
        
        // 1 error
        // "err" is defined but never used
        try {
            //...
        } catch (err) {
            console.error("errors");
        }

        caughtErrorsIgnorePattern

        The caughtErrorsIgnorePattern option specifies exceptions not to check for usage: catch arguments whose names match a regexp pattern. For example, variables whose names begin with a string 'ignore'.

        Examples of correct code for the { "caughtErrorsIgnorePattern": "^ignore" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrorsIgnorePattern": "^ignore" }]*/
        
        try {
            //...
        } catch (ignoreErr) {
            console.error("errors");
        }

        When Not To Use It

        If you don't want to be notified about unused variables or function arguments, you can safely turn this rule off. Source: http://eslint.org/docs/rules/

        Unexpected console statement.
        Open

                console.log(
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        Unexpected console statement.
        Open

                console.log('min ' + min + ' max ' + max);
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        'bar' is assigned a value but never used.
        Open

                var bar = this.legend
        Severity: Minor
        Found in public/js/circos.js by eslint

        Disallow Unused Variables (no-unused-vars)

        Variables that are declared and not used anywhere in the code are most likely an error due to incomplete refactoring. Such variables take up space in the code and can lead to confusion by readers.

        Rule Details

        This rule is aimed at eliminating unused variables, functions, and parameters of functions.

        A variable is considered to be used if any of the following are true:

        • It represents a function that is called (doSomething())
        • It is read (var y = x)
        • It is passed into a function as an argument (doSomething(x))
        • It is read inside of a function that is passed to another function (doSomething(function() { foo(); }))

        A variable is not considered to be used if it is only ever assigned to (var x = 5) or declared.

        Examples of incorrect code for this rule:

        /*eslint no-unused-vars: "error"*/
        /*global some_unused_var*/
        
        // It checks variables you have defined as global
        some_unused_var = 42;
        
        var x;
        
        // Write-only variables are not considered as used.
        var y = 10;
        y = 5;
        
        // A read for a modification of itself is not considered as used.
        var z = 0;
        z = z + 1;
        
        // By default, unused arguments cause warnings.
        (function(foo) {
            return 5;
        })();
        
        // Unused recursive functions also cause warnings.
        function fact(n) {
            if (n < 2) return 1;
            return n * fact(n - 1);
        }
        
        // When a function definition destructures an array, unused entries from the array also cause warnings.
        function getY([x, y]) {
            return y;
        }

        Examples of correct code for this rule:

        /*eslint no-unused-vars: "error"*/
        
        var x = 10;
        alert(x);
        
        // foo is considered used here
        myFunc(function foo() {
            // ...
        }.bind(this));
        
        (function(foo) {
            return foo;
        })();
        
        var myFunc;
        myFunc = setTimeout(function() {
            // myFunc is considered used
            myFunc();
        }, 50);
        
        // Only the second argument from the descructured array is used.
        function getY([, y]) {
            return y;
        }

        exported

        In environments outside of CommonJS or ECMAScript modules, you may use var to create a global variable that may be used by other scripts. You can use the /* exported variableName */ comment block to indicate that this variable is being exported and therefore should not be considered unused.

        Note that /* exported */ has no effect for any of the following:

        • when the environment is node or commonjs
        • when parserOptions.sourceType is module
        • when ecmaFeatures.globalReturn is true

        The line comment // exported variableName will not work as exported is not line-specific.

        Examples of correct code for /* exported variableName */ operation:

        /* exported global_var */
        
        var global_var = 42;

        Options

        This rule takes one argument which can be a string or an object. The string settings are the same as those of the vars property (explained below).

        By default this rule is enabled with all option for variables and after-used for arguments.

        {
            "rules": {
                "no-unused-vars": ["error", { "vars": "all", "args": "after-used", "ignoreRestSiblings": false }]
            }
        }

        vars

        The vars option has two settings:

        • all checks all variables for usage, including those in the global scope. This is the default setting.
        • local checks only that locally-declared variables are used but will allow global variables to be unused.

        vars: local

        Examples of correct code for the { "vars": "local" } option:

        /*eslint no-unused-vars: ["error", { "vars": "local" }]*/
        /*global some_unused_var */
        
        some_unused_var = 42;

        varsIgnorePattern

        The varsIgnorePattern option specifies exceptions not to check for usage: variables whose names match a regexp pattern. For example, variables whose names contain ignored or Ignored.

        Examples of correct code for the { "varsIgnorePattern": "[iI]gnored" } option:

        /*eslint no-unused-vars: ["error", { "varsIgnorePattern": "[iI]gnored" }]*/
        
        var firstVarIgnored = 1;
        var secondVar = 2;
        console.log(secondVar);

        args

        The args option has three settings:

        • after-used - only the last argument must be used. This allows you, for instance, to have two named parameters to a function and as long as you use the second argument, ESLint will not warn you about the first. This is the default setting.
        • all - all named arguments must be used.
        • none - do not check arguments.

        args: after-used

        Examples of incorrect code for the default { "args": "after-used" } option:

        /*eslint no-unused-vars: ["error", { "args": "after-used" }]*/
        
        // 1 error
        // "baz" is defined but never used
        (function(foo, bar, baz) {
            return bar;
        })();

        Examples of correct code for the default { "args": "after-used" } option:

        /*eslint no-unused-vars: ["error", {"args": "after-used"}]*/
        
        (function(foo, bar, baz) {
            return baz;
        })();

        args: all

        Examples of incorrect code for the { "args": "all" } option:

        /*eslint no-unused-vars: ["error", { "args": "all" }]*/
        
        // 2 errors
        // "foo" is defined but never used
        // "baz" is defined but never used
        (function(foo, bar, baz) {
            return bar;
        })();

        args: none

        Examples of correct code for the { "args": "none" } option:

        /*eslint no-unused-vars: ["error", { "args": "none" }]*/
        
        (function(foo, bar, baz) {
            return bar;
        })();

        ignoreRestSiblings

        The ignoreRestSiblings option is a boolean (default: false). Using a Rest Property it is possible to "omit" properties from an object, but by default the sibling properties are marked as "unused". With this option enabled the rest property's siblings are ignored.

        Examples of correct code for the { "ignoreRestSiblings": true } option:

        /*eslint no-unused-vars: ["error", { "ignoreRestSiblings": true }]*/
        // 'type' is ignored because it has a rest property sibling.
        var { type, ...coords } = data;

        argsIgnorePattern

        The argsIgnorePattern option specifies exceptions not to check for usage: arguments whose names match a regexp pattern. For example, variables whose names begin with an underscore.

        Examples of correct code for the { "argsIgnorePattern": "^_" } option:

        /*eslint no-unused-vars: ["error", { "argsIgnorePattern": "^_" }]*/
        
        function foo(x, _y) {
            return x + 1;
        }
        foo();

        caughtErrors

        The caughtErrors option is used for catch block arguments validation.

        It has two settings:

        • none - do not check error objects. This is the default setting.
        • all - all named arguments must be used.

        caughtErrors: none

        Not specifying this rule is equivalent of assigning it to none.

        Examples of correct code for the { "caughtErrors": "none" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrors": "none" }]*/
        
        try {
            //...
        } catch (err) {
            console.error("errors");
        }

        caughtErrors: all

        Examples of incorrect code for the { "caughtErrors": "all" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrors": "all" }]*/
        
        // 1 error
        // "err" is defined but never used
        try {
            //...
        } catch (err) {
            console.error("errors");
        }

        caughtErrorsIgnorePattern

        The caughtErrorsIgnorePattern option specifies exceptions not to check for usage: catch arguments whose names match a regexp pattern. For example, variables whose names begin with a string 'ignore'.

        Examples of correct code for the { "caughtErrorsIgnorePattern": "^ignore" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrorsIgnorePattern": "^ignore" }]*/
        
        try {
            //...
        } catch (ignoreErr) {
            console.error("errors");
        }

        When Not To Use It

        If you don't want to be notified about unused variables or function arguments, you can safely turn this rule off. Source: http://eslint.org/docs/rules/

        Unexpected console statement.
        Open

                console.log('chords_arr ' + this.chords_arr.length);
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        Unexpected console statement.
        Open

                console.log('ratioHSP test ' + this.ratioHSP.length);
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        Unexpected console statement.
        Open

                console.log('paletteSize ' + this.paletteSize);
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        Unexpected console statement.
        Open

                            console.log('calc ratio ' + s);
        Severity: Minor
        Found in public/js/circos.js by eslint

        disallow the use of console (no-console)

        In JavaScript that is designed to be executed in the browser, it's considered a best practice to avoid using methods on console. Such messages are considered to be for debugging purposes and therefore not suitable to ship to the client. In general, calls using console should be stripped before being pushed to production.

        console.log("Made it here.");
        console.error("That shouldn't have happened.");

        Rule Details

        This rule disallows calls to methods of the console object.

        Examples of incorrect code for this rule:

        /*eslint no-console: "error"*/
        
        console.log("Log a debug level message.");
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        Examples of correct code for this rule:

        /*eslint no-console: "error"*/
        
        // custom console
        Console.log("Hello world!");

        Options

        This rule has an object option for exceptions:

        • "allow" has an array of strings which are allowed methods of the console object

        Examples of additional correct code for this rule with a sample { "allow": ["warn", "error"] } option:

        /*eslint no-console: ["error", { allow: ["warn", "error"] }] */
        
        console.warn("Log a warn level message.");
        console.error("Log an error level message.");

        When Not To Use It

        If you're using Node.js, however, console is used to output information to the user and so is not strictly used for debugging purposes. If you are developing for Node.js then you most likely do not want this rule enabled.

        Related Rules

        'scale' is assigned a value but never used.
        Open

                var scale = d3.scaleLinear().domain([0, 250]).range([0, 100]);
        Severity: Minor
        Found in public/js/circos.js by eslint

        Disallow Unused Variables (no-unused-vars)

        Variables that are declared and not used anywhere in the code are most likely an error due to incomplete refactoring. Such variables take up space in the code and can lead to confusion by readers.

        Rule Details

        This rule is aimed at eliminating unused variables, functions, and parameters of functions.

        A variable is considered to be used if any of the following are true:

        • It represents a function that is called (doSomething())
        • It is read (var y = x)
        • It is passed into a function as an argument (doSomething(x))
        • It is read inside of a function that is passed to another function (doSomething(function() { foo(); }))

        A variable is not considered to be used if it is only ever assigned to (var x = 5) or declared.

        Examples of incorrect code for this rule:

        /*eslint no-unused-vars: "error"*/
        /*global some_unused_var*/
        
        // It checks variables you have defined as global
        some_unused_var = 42;
        
        var x;
        
        // Write-only variables are not considered as used.
        var y = 10;
        y = 5;
        
        // A read for a modification of itself is not considered as used.
        var z = 0;
        z = z + 1;
        
        // By default, unused arguments cause warnings.
        (function(foo) {
            return 5;
        })();
        
        // Unused recursive functions also cause warnings.
        function fact(n) {
            if (n < 2) return 1;
            return n * fact(n - 1);
        }
        
        // When a function definition destructures an array, unused entries from the array also cause warnings.
        function getY([x, y]) {
            return y;
        }

        Examples of correct code for this rule:

        /*eslint no-unused-vars: "error"*/
        
        var x = 10;
        alert(x);
        
        // foo is considered used here
        myFunc(function foo() {
            // ...
        }.bind(this));
        
        (function(foo) {
            return foo;
        })();
        
        var myFunc;
        myFunc = setTimeout(function() {
            // myFunc is considered used
            myFunc();
        }, 50);
        
        // Only the second argument from the descructured array is used.
        function getY([, y]) {
            return y;
        }

        exported

        In environments outside of CommonJS or ECMAScript modules, you may use var to create a global variable that may be used by other scripts. You can use the /* exported variableName */ comment block to indicate that this variable is being exported and therefore should not be considered unused.

        Note that /* exported */ has no effect for any of the following:

        • when the environment is node or commonjs
        • when parserOptions.sourceType is module
        • when ecmaFeatures.globalReturn is true

        The line comment // exported variableName will not work as exported is not line-specific.

        Examples of correct code for /* exported variableName */ operation:

        /* exported global_var */
        
        var global_var = 42;

        Options

        This rule takes one argument which can be a string or an object. The string settings are the same as those of the vars property (explained below).

        By default this rule is enabled with all option for variables and after-used for arguments.

        {
            "rules": {
                "no-unused-vars": ["error", { "vars": "all", "args": "after-used", "ignoreRestSiblings": false }]
            }
        }

        vars

        The vars option has two settings:

        • all checks all variables for usage, including those in the global scope. This is the default setting.
        • local checks only that locally-declared variables are used but will allow global variables to be unused.

        vars: local

        Examples of correct code for the { "vars": "local" } option:

        /*eslint no-unused-vars: ["error", { "vars": "local" }]*/
        /*global some_unused_var */
        
        some_unused_var = 42;

        varsIgnorePattern

        The varsIgnorePattern option specifies exceptions not to check for usage: variables whose names match a regexp pattern. For example, variables whose names contain ignored or Ignored.

        Examples of correct code for the { "varsIgnorePattern": "[iI]gnored" } option:

        /*eslint no-unused-vars: ["error", { "varsIgnorePattern": "[iI]gnored" }]*/
        
        var firstVarIgnored = 1;
        var secondVar = 2;
        console.log(secondVar);

        args

        The args option has three settings:

        • after-used - only the last argument must be used. This allows you, for instance, to have two named parameters to a function and as long as you use the second argument, ESLint will not warn you about the first. This is the default setting.
        • all - all named arguments must be used.
        • none - do not check arguments.

        args: after-used

        Examples of incorrect code for the default { "args": "after-used" } option:

        /*eslint no-unused-vars: ["error", { "args": "after-used" }]*/
        
        // 1 error
        // "baz" is defined but never used
        (function(foo, bar, baz) {
            return bar;
        })();

        Examples of correct code for the default { "args": "after-used" } option:

        /*eslint no-unused-vars: ["error", {"args": "after-used"}]*/
        
        (function(foo, bar, baz) {
            return baz;
        })();

        args: all

        Examples of incorrect code for the { "args": "all" } option:

        /*eslint no-unused-vars: ["error", { "args": "all" }]*/
        
        // 2 errors
        // "foo" is defined but never used
        // "baz" is defined but never used
        (function(foo, bar, baz) {
            return bar;
        })();

        args: none

        Examples of correct code for the { "args": "none" } option:

        /*eslint no-unused-vars: ["error", { "args": "none" }]*/
        
        (function(foo, bar, baz) {
            return bar;
        })();

        ignoreRestSiblings

        The ignoreRestSiblings option is a boolean (default: false). Using a Rest Property it is possible to "omit" properties from an object, but by default the sibling properties are marked as "unused". With this option enabled the rest property's siblings are ignored.

        Examples of correct code for the { "ignoreRestSiblings": true } option:

        /*eslint no-unused-vars: ["error", { "ignoreRestSiblings": true }]*/
        // 'type' is ignored because it has a rest property sibling.
        var { type, ...coords } = data;

        argsIgnorePattern

        The argsIgnorePattern option specifies exceptions not to check for usage: arguments whose names match a regexp pattern. For example, variables whose names begin with an underscore.

        Examples of correct code for the { "argsIgnorePattern": "^_" } option:

        /*eslint no-unused-vars: ["error", { "argsIgnorePattern": "^_" }]*/
        
        function foo(x, _y) {
            return x + 1;
        }
        foo();

        caughtErrors

        The caughtErrors option is used for catch block arguments validation.

        It has two settings:

        • none - do not check error objects. This is the default setting.
        • all - all named arguments must be used.

        caughtErrors: none

        Not specifying this rule is equivalent of assigning it to none.

        Examples of correct code for the { "caughtErrors": "none" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrors": "none" }]*/
        
        try {
            //...
        } catch (err) {
            console.error("errors");
        }

        caughtErrors: all

        Examples of incorrect code for the { "caughtErrors": "all" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrors": "all" }]*/
        
        // 1 error
        // "err" is defined but never used
        try {
            //...
        } catch (err) {
            console.error("errors");
        }

        caughtErrorsIgnorePattern

        The caughtErrorsIgnorePattern option specifies exceptions not to check for usage: catch arguments whose names match a regexp pattern. For example, variables whose names begin with a string 'ignore'.

        Examples of correct code for the { "caughtErrorsIgnorePattern": "^ignore" } option:

        /*eslint no-unused-vars: ["error", { "caughtErrorsIgnorePattern": "^ignore" }]*/
        
        try {
            //...
        } catch (ignoreErr) {
            console.error("errors");
        }

        When Not To Use It

        If you don't want to be notified about unused variables or function arguments, you can safely turn this rule off. Source: http://eslint.org/docs/rules/

        Expected indentation of 20 spaces but found 18.
        Open

                          $(this).css(position);
        Severity: Minor
        Found in public/js/circos.js by eslint

        enforce consistent indentation (indent)

        There are several common guidelines which require specific indentation of nested blocks and statements, like:

        function hello(indentSize, type) {
            if (indentSize === 4 && type !== 'tab') {
                console.log('Each next indentation will increase on 4 spaces');
            }
        }

        These are the most common scenarios recommended in different style guides:

        • Two spaces, not longer and no tabs: Google, npm, Node.js, Idiomatic, Felix
        • Tabs: jQuery
        • Four spaces: Crockford

        Rule Details

        This rule enforces a consistent indentation style. The default style is 4 spaces.

        Options

        This rule has a mixed option:

        For example, for 2-space indentation:

        {
            "indent": ["error", 2]
        }

        Or for tabbed indentation:

        {
            "indent": ["error", "tab"]
        }

        Examples of incorrect code for this rule with the default options:

        /*eslint indent: "error"*/
        
        if (a) {
          b=c;
          function foo(d) {
            e=f;
          }
        }

        Examples of correct code for this rule with the default options:

        /*eslint indent: "error"*/
        
        if (a) {
            b=c;
            function foo(d) {
                e=f;
            }
        }

        This rule has an object option:

        • "SwitchCase" (default: 0) enforces indentation level for case clauses in switch statements
        • "VariableDeclarator" (default: 1) enforces indentation level for var declarators; can also take an object to define separate rules for var, let and const declarations.
        • "outerIIFEBody" (default: 1) enforces indentation level for file-level IIFEs.
        • "MemberExpression" (off by default) enforces indentation level for multi-line property chains (except in variable declarations and assignments)
        • "FunctionDeclaration" takes an object to define rules for function declarations.
          • parameters (off by default) enforces indentation level for parameters in a function declaration. This can either be a number indicating indentation level, or the string "first" indicating that all parameters of the declaration must be aligned with the first parameter.
          • body (default: 1) enforces indentation level for the body of a function declaration.
        • "FunctionExpression" takes an object to define rules for function expressions.
          • parameters (off by default) enforces indentation level for parameters in a function expression. This can either be a number indicating indentation level, or the string "first" indicating that all parameters of the expression must be aligned with the first parameter.
          • body (default: 1) enforces indentation level for the body of a function expression.
        • "CallExpression" takes an object to define rules for function call expressions.
          • arguments (off by default) enforces indentation level for arguments in a call expression. This can either be a number indicating indentation level, or the string "first" indicating that all arguments of the expression must be aligned with the first argument.
        • "ArrayExpression" (default: 1) enforces indentation level for elements in arrays. It can also be set to the string "first", indicating that all the elements in the array should be aligned with the first element.
        • "ObjectExpression" (default: 1) enforces indentation level for properties in objects. It can be set to the string "first", indicating that all properties in the object should be aligned with the first property.

        Level of indentation denotes the multiple of the indent specified. Example:

        • Indent of 4 spaces with VariableDeclarator set to 2 will indent the multi-line variable declarations with 8 spaces.
        • Indent of 2 spaces with VariableDeclarator set to 2 will indent the multi-line variable declarations with 4 spaces.
        • Indent of 2 spaces with VariableDeclarator set to {"var": 2, "let": 2, "const": 3} will indent the multi-line variable declarations with 4 spaces for var and let, 6 spaces for const statements.
        • Indent of tab with VariableDeclarator set to 2 will indent the multi-line variable declarations with 2 tabs.
        • Indent of 2 spaces with SwitchCase set to 0 will not indent case clauses with respect to switch statements.
        • Indent of 2 spaces with SwitchCase set to 1 will indent case clauses with 2 spaces with respect to switch statements.
        • Indent of 2 spaces with SwitchCase set to 2 will indent case clauses with 4 spaces with respect to switch statements.
        • Indent of tab with SwitchCase set to 2 will indent case clauses with 2 tabs with respect to switch statements.
        • Indent of 2 spaces with MemberExpression set to 0 will indent the multi-line property chains with 0 spaces.
        • Indent of 2 spaces with MemberExpression set to 1 will indent the multi-line property chains with 2 spaces.
        • Indent of 2 spaces with MemberExpression set to 2 will indent the multi-line property chains with 4 spaces.
        • Indent of 4 spaces with MemberExpression set to 0 will indent the multi-line property chains with 0 spaces.
        • Indent of 4 spaces with MemberExpression set to 1 will indent the multi-line property chains with 4 spaces.
        • Indent of 4 spaces with MemberExpression set to 2 will indent the multi-line property chains with 8 spaces.

        tab

        Examples of incorrect code for this rule with the "tab" option:

        /*eslint indent: ["error", "tab"]*/
        
        if (a) {
             b=c;
        function foo(d) {
                   e=f;
         }
        }

        Examples of correct code for this rule with the "tab" option:

        /*eslint indent: ["error", "tab"]*/
        
        if (a) {
        /*tab*/b=c;
        /*tab*/function foo(d) {
        /*tab*//*tab*/e=f;
        /*tab*/}
        }

        SwitchCase

        Examples of incorrect code for this rule with the 2, { "SwitchCase": 1 } options:

        /*eslint indent: ["error", 2, { "SwitchCase": 1 }]*/
        
        switch(a){
        case "a":
            break;
        case "b":
            break;
        }

        Examples of correct code for this rule with the 2, { "SwitchCase": 1 } option:

        /*eslint indent: ["error", 2, { "SwitchCase": 1 }]*/
        
        switch(a){
          case "a":
            break;
          case "b":
            break;
        }

        VariableDeclarator

        Examples of incorrect code for this rule with the 2, { "VariableDeclarator": 1 } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": 1 }]*/
        /*eslint-env es6*/
        
        var a,
            b,
            c;
        let a,
            b,
            c;
        const a = 1,
            b = 2,
            c = 3;

        Examples of correct code for this rule with the 2, { "VariableDeclarator": 1 } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": 1 }]*/
        /*eslint-env es6*/
        
        var a,
          b,
          c;
        let a,
          b,
          c;
        const a = 1,
          b = 2,
          c = 3;

        Examples of correct code for this rule with the 2, { "VariableDeclarator": 2 } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": 2 }]*/
        /*eslint-env es6*/
        
        var a,
            b,
            c;
        let a,
            b,
            c;
        const a = 1,
            b = 2,
            c = 3;

        Examples of correct code for this rule with the 2, { "VariableDeclarator": { "var": 2, "let": 2, "const": 3 } } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": { "var": 2, "let": 2, "const": 3 } }]*/
        /*eslint-env es6*/
        
        var a,
            b,
            c;
        let a,
            b,
            c;
        const a = 1,
              b = 2,
              c = 3;

        outerIIFEBody

        Examples of incorrect code for this rule with the options 2, { "outerIIFEBody": 0 }:

        /*eslint indent: ["error", 2, { "outerIIFEBody": 0 }]*/
        
        (function() {
        
          function foo(x) {
            return x + 1;
          }
        
        })();
        
        
        if(y) {
        console.log('foo');
        }

        Examples of correct code for this rule with the options 2, {"outerIIFEBody": 0}:

        /*eslint indent: ["error", 2, { "outerIIFEBody": 0 }]*/
        
        (function() {
        
        function foo(x) {
          return x + 1;
        }
        
        })();
        
        
        if(y) {
           console.log('foo');
        }

        MemberExpression

        Examples of incorrect code for this rule with the 2, { "MemberExpression": 1 } options:

        /*eslint indent: ["error", 2, { "MemberExpression": 1 }]*/
        
        foo
        .bar
        .baz()

        Examples of correct code for this rule with the 2, { "MemberExpression": 1 } option:

        /*eslint indent: ["error", 2, { "MemberExpression": 1 }]*/
        
        foo
          .bar
          .baz();
        
        // Any indentation is permitted in variable declarations and assignments.
        var bip = aardvark.badger
                          .coyote;

        FunctionDeclaration

        Examples of incorrect code for this rule with the 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} }]*/
        
        function foo(bar,
          baz,
          qux) {
            qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} }]*/
        
        function foo(bar,
            baz,
            qux) {
          qux();
        }

        Examples of incorrect code for this rule with the 2, { "FunctionDeclaration": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionDeclaration": {"parameters": "first"}}]*/
        
        function foo(bar, baz,
          qux, boop) {
          qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionDeclaration": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionDeclaration": {"parameters": "first"}}]*/
        
        function foo(bar, baz,
                     qux, boop) {
          qux();
        }

        FunctionExpression

        Examples of incorrect code for this rule with the 2, { "FunctionExpression": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionExpression": {"body": 1, "parameters": 2} }]*/
        
        var foo = function(bar,
          baz,
          qux) {
            qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionExpression": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionExpression": {"body": 1, "parameters": 2} }]*/
        
        var foo = function(bar,
            baz,
            qux) {
          qux();
        }

        Examples of incorrect code for this rule with the 2, { "FunctionExpression": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionExpression": {"parameters": "first"}}]*/
        
        var foo = function(bar, baz,
          qux, boop) {
          qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionExpression": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionExpression": {"parameters": "first"}}]*/
        
        var foo = function(bar, baz,
                           qux, boop) {
          qux();
        }

        CallExpression

        Examples of incorrect code for this rule with the 2, { "CallExpression": {"arguments": 1} } option:

        /*eslint indent: ["error", 2, { "CallExpression": {"arguments": 1} }]*/
        
        foo(bar,
            baz,
              qux
        );

        Examples of correct code for this rule with the 2, { "CallExpression": {"arguments": 1} } option:

        /*eslint indent: ["error", 2, { "CallExpression": {"arguments": 1} }]*/
        
        foo(bar,
          baz,
          qux
        );

        Examples of incorrect code for this rule with the 2, { "CallExpression": {"arguments": "first"} } option:

        /*eslint indent: ["error", 2, {"CallExpression": {"arguments": "first"}}]*/
        
        foo(bar, baz,
          baz, boop, beep);

        Examples of correct code for this rule with the 2, { "CallExpression": {"arguments": "first"} } option:

        /*eslint indent: ["error", 2, {"CallExpression": {"arguments": "first"}}]*/
        
        foo(bar, baz,
            baz, boop, beep);

        ArrayExpression

        Examples of incorrect code for this rule with the 2, { "ArrayExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ArrayExpression": 1 }]*/
        
        var foo = [
            bar,
        baz,
              qux
        ];

        Examples of correct code for this rule with the 2, { "ArrayExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ArrayExpression": 1 }]*/
        
        var foo = [
          bar,
          baz,
          qux
        ];

        Examples of incorrect code for this rule with the 2, { "ArrayExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ArrayExpression": "first"}]*/
        
        var foo = [bar,
          baz,
          qux
        ];

        Examples of correct code for this rule with the 2, { "ArrayExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ArrayExpression": "first"}]*/
        
        var foo = [bar,
                   baz,
                   qux
        ];

        ObjectExpression

        Examples of incorrect code for this rule with the 2, { "ObjectExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ObjectExpression": 1 }]*/
        
        var foo = {
            bar: 1,
        baz: 2,
              qux: 3
        };

        Examples of correct code for this rule with the 2, { "ObjectExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ObjectExpression": 1 }]*/
        
        var foo = {
          bar: 1,
          baz: 2,
          qux: 3
        };

        Examples of incorrect code for this rule with the 2, { "ObjectExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ObjectExpression": "first"}]*/
        
        var foo = { bar: 1,
          baz: 2 };

        Examples of correct code for this rule with the 2, { "ObjectExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ObjectExpression": "first"}]*/
        
        var foo = { bar: 1,
                    baz: 2 };

        Compatibility

        Expected indentation of 20 spaces but found 18.
        Open

                          $('<div>')
        Severity: Minor
        Found in public/js/circos.js by eslint

        enforce consistent indentation (indent)

        There are several common guidelines which require specific indentation of nested blocks and statements, like:

        function hello(indentSize, type) {
            if (indentSize === 4 && type !== 'tab') {
                console.log('Each next indentation will increase on 4 spaces');
            }
        }

        These are the most common scenarios recommended in different style guides:

        • Two spaces, not longer and no tabs: Google, npm, Node.js, Idiomatic, Felix
        • Tabs: jQuery
        • Four spaces: Crockford

        Rule Details

        This rule enforces a consistent indentation style. The default style is 4 spaces.

        Options

        This rule has a mixed option:

        For example, for 2-space indentation:

        {
            "indent": ["error", 2]
        }

        Or for tabbed indentation:

        {
            "indent": ["error", "tab"]
        }

        Examples of incorrect code for this rule with the default options:

        /*eslint indent: "error"*/
        
        if (a) {
          b=c;
          function foo(d) {
            e=f;
          }
        }

        Examples of correct code for this rule with the default options:

        /*eslint indent: "error"*/
        
        if (a) {
            b=c;
            function foo(d) {
                e=f;
            }
        }

        This rule has an object option:

        • "SwitchCase" (default: 0) enforces indentation level for case clauses in switch statements
        • "VariableDeclarator" (default: 1) enforces indentation level for var declarators; can also take an object to define separate rules for var, let and const declarations.
        • "outerIIFEBody" (default: 1) enforces indentation level for file-level IIFEs.
        • "MemberExpression" (off by default) enforces indentation level for multi-line property chains (except in variable declarations and assignments)
        • "FunctionDeclaration" takes an object to define rules for function declarations.
          • parameters (off by default) enforces indentation level for parameters in a function declaration. This can either be a number indicating indentation level, or the string "first" indicating that all parameters of the declaration must be aligned with the first parameter.
          • body (default: 1) enforces indentation level for the body of a function declaration.
        • "FunctionExpression" takes an object to define rules for function expressions.
          • parameters (off by default) enforces indentation level for parameters in a function expression. This can either be a number indicating indentation level, or the string "first" indicating that all parameters of the expression must be aligned with the first parameter.
          • body (default: 1) enforces indentation level for the body of a function expression.
        • "CallExpression" takes an object to define rules for function call expressions.
          • arguments (off by default) enforces indentation level for arguments in a call expression. This can either be a number indicating indentation level, or the string "first" indicating that all arguments of the expression must be aligned with the first argument.
        • "ArrayExpression" (default: 1) enforces indentation level for elements in arrays. It can also be set to the string "first", indicating that all the elements in the array should be aligned with the first element.
        • "ObjectExpression" (default: 1) enforces indentation level for properties in objects. It can be set to the string "first", indicating that all properties in the object should be aligned with the first property.

        Level of indentation denotes the multiple of the indent specified. Example:

        • Indent of 4 spaces with VariableDeclarator set to 2 will indent the multi-line variable declarations with 8 spaces.
        • Indent of 2 spaces with VariableDeclarator set to 2 will indent the multi-line variable declarations with 4 spaces.
        • Indent of 2 spaces with VariableDeclarator set to {"var": 2, "let": 2, "const": 3} will indent the multi-line variable declarations with 4 spaces for var and let, 6 spaces for const statements.
        • Indent of tab with VariableDeclarator set to 2 will indent the multi-line variable declarations with 2 tabs.
        • Indent of 2 spaces with SwitchCase set to 0 will not indent case clauses with respect to switch statements.
        • Indent of 2 spaces with SwitchCase set to 1 will indent case clauses with 2 spaces with respect to switch statements.
        • Indent of 2 spaces with SwitchCase set to 2 will indent case clauses with 4 spaces with respect to switch statements.
        • Indent of tab with SwitchCase set to 2 will indent case clauses with 2 tabs with respect to switch statements.
        • Indent of 2 spaces with MemberExpression set to 0 will indent the multi-line property chains with 0 spaces.
        • Indent of 2 spaces with MemberExpression set to 1 will indent the multi-line property chains with 2 spaces.
        • Indent of 2 spaces with MemberExpression set to 2 will indent the multi-line property chains with 4 spaces.
        • Indent of 4 spaces with MemberExpression set to 0 will indent the multi-line property chains with 0 spaces.
        • Indent of 4 spaces with MemberExpression set to 1 will indent the multi-line property chains with 4 spaces.
        • Indent of 4 spaces with MemberExpression set to 2 will indent the multi-line property chains with 8 spaces.

        tab

        Examples of incorrect code for this rule with the "tab" option:

        /*eslint indent: ["error", "tab"]*/
        
        if (a) {
             b=c;
        function foo(d) {
                   e=f;
         }
        }

        Examples of correct code for this rule with the "tab" option:

        /*eslint indent: ["error", "tab"]*/
        
        if (a) {
        /*tab*/b=c;
        /*tab*/function foo(d) {
        /*tab*//*tab*/e=f;
        /*tab*/}
        }

        SwitchCase

        Examples of incorrect code for this rule with the 2, { "SwitchCase": 1 } options:

        /*eslint indent: ["error", 2, { "SwitchCase": 1 }]*/
        
        switch(a){
        case "a":
            break;
        case "b":
            break;
        }

        Examples of correct code for this rule with the 2, { "SwitchCase": 1 } option:

        /*eslint indent: ["error", 2, { "SwitchCase": 1 }]*/
        
        switch(a){
          case "a":
            break;
          case "b":
            break;
        }

        VariableDeclarator

        Examples of incorrect code for this rule with the 2, { "VariableDeclarator": 1 } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": 1 }]*/
        /*eslint-env es6*/
        
        var a,
            b,
            c;
        let a,
            b,
            c;
        const a = 1,
            b = 2,
            c = 3;

        Examples of correct code for this rule with the 2, { "VariableDeclarator": 1 } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": 1 }]*/
        /*eslint-env es6*/
        
        var a,
          b,
          c;
        let a,
          b,
          c;
        const a = 1,
          b = 2,
          c = 3;

        Examples of correct code for this rule with the 2, { "VariableDeclarator": 2 } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": 2 }]*/
        /*eslint-env es6*/
        
        var a,
            b,
            c;
        let a,
            b,
            c;
        const a = 1,
            b = 2,
            c = 3;

        Examples of correct code for this rule with the 2, { "VariableDeclarator": { "var": 2, "let": 2, "const": 3 } } options:

        /*eslint indent: ["error", 2, { "VariableDeclarator": { "var": 2, "let": 2, "const": 3 } }]*/
        /*eslint-env es6*/
        
        var a,
            b,
            c;
        let a,
            b,
            c;
        const a = 1,
              b = 2,
              c = 3;

        outerIIFEBody

        Examples of incorrect code for this rule with the options 2, { "outerIIFEBody": 0 }:

        /*eslint indent: ["error", 2, { "outerIIFEBody": 0 }]*/
        
        (function() {
        
          function foo(x) {
            return x + 1;
          }
        
        })();
        
        
        if(y) {
        console.log('foo');
        }

        Examples of correct code for this rule with the options 2, {"outerIIFEBody": 0}:

        /*eslint indent: ["error", 2, { "outerIIFEBody": 0 }]*/
        
        (function() {
        
        function foo(x) {
          return x + 1;
        }
        
        })();
        
        
        if(y) {
           console.log('foo');
        }

        MemberExpression

        Examples of incorrect code for this rule with the 2, { "MemberExpression": 1 } options:

        /*eslint indent: ["error", 2, { "MemberExpression": 1 }]*/
        
        foo
        .bar
        .baz()

        Examples of correct code for this rule with the 2, { "MemberExpression": 1 } option:

        /*eslint indent: ["error", 2, { "MemberExpression": 1 }]*/
        
        foo
          .bar
          .baz();
        
        // Any indentation is permitted in variable declarations and assignments.
        var bip = aardvark.badger
                          .coyote;

        FunctionDeclaration

        Examples of incorrect code for this rule with the 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} }]*/
        
        function foo(bar,
          baz,
          qux) {
            qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionDeclaration": {"body": 1, "parameters": 2} }]*/
        
        function foo(bar,
            baz,
            qux) {
          qux();
        }

        Examples of incorrect code for this rule with the 2, { "FunctionDeclaration": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionDeclaration": {"parameters": "first"}}]*/
        
        function foo(bar, baz,
          qux, boop) {
          qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionDeclaration": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionDeclaration": {"parameters": "first"}}]*/
        
        function foo(bar, baz,
                     qux, boop) {
          qux();
        }

        FunctionExpression

        Examples of incorrect code for this rule with the 2, { "FunctionExpression": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionExpression": {"body": 1, "parameters": 2} }]*/
        
        var foo = function(bar,
          baz,
          qux) {
            qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionExpression": {"body": 1, "parameters": 2} } option:

        /*eslint indent: ["error", 2, { "FunctionExpression": {"body": 1, "parameters": 2} }]*/
        
        var foo = function(bar,
            baz,
            qux) {
          qux();
        }

        Examples of incorrect code for this rule with the 2, { "FunctionExpression": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionExpression": {"parameters": "first"}}]*/
        
        var foo = function(bar, baz,
          qux, boop) {
          qux();
        }

        Examples of correct code for this rule with the 2, { "FunctionExpression": {"parameters": "first"} } option:

        /*eslint indent: ["error", 2, {"FunctionExpression": {"parameters": "first"}}]*/
        
        var foo = function(bar, baz,
                           qux, boop) {
          qux();
        }

        CallExpression

        Examples of incorrect code for this rule with the 2, { "CallExpression": {"arguments": 1} } option:

        /*eslint indent: ["error", 2, { "CallExpression": {"arguments": 1} }]*/
        
        foo(bar,
            baz,
              qux
        );

        Examples of correct code for this rule with the 2, { "CallExpression": {"arguments": 1} } option:

        /*eslint indent: ["error", 2, { "CallExpression": {"arguments": 1} }]*/
        
        foo(bar,
          baz,
          qux
        );

        Examples of incorrect code for this rule with the 2, { "CallExpression": {"arguments": "first"} } option:

        /*eslint indent: ["error", 2, {"CallExpression": {"arguments": "first"}}]*/
        
        foo(bar, baz,
          baz, boop, beep);

        Examples of correct code for this rule with the 2, { "CallExpression": {"arguments": "first"} } option:

        /*eslint indent: ["error", 2, {"CallExpression": {"arguments": "first"}}]*/
        
        foo(bar, baz,
            baz, boop, beep);

        ArrayExpression

        Examples of incorrect code for this rule with the 2, { "ArrayExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ArrayExpression": 1 }]*/
        
        var foo = [
            bar,
        baz,
              qux
        ];

        Examples of correct code for this rule with the 2, { "ArrayExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ArrayExpression": 1 }]*/
        
        var foo = [
          bar,
          baz,
          qux
        ];

        Examples of incorrect code for this rule with the 2, { "ArrayExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ArrayExpression": "first"}]*/
        
        var foo = [bar,
          baz,
          qux
        ];

        Examples of correct code for this rule with the 2, { "ArrayExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ArrayExpression": "first"}]*/
        
        var foo = [bar,
                   baz,
                   qux
        ];

        ObjectExpression

        Examples of incorrect code for this rule with the 2, { "ObjectExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ObjectExpression": 1 }]*/
        
        var foo = {
            bar: 1,
        baz: 2,
              qux: 3
        };

        Examples of correct code for this rule with the 2, { "ObjectExpression": 1 } option:

        /*eslint indent: ["error", 2, { "ObjectExpression": 1 }]*/
        
        var foo = {
          bar: 1,
          baz: 2,
          qux: 3
        };

        Examples of incorrect code for this rule with the 2, { "ObjectExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ObjectExpression": "first"}]*/
        
        var foo = { bar: 1,
          baz: 2 };

        Examples of correct code for this rule with the 2, { "ObjectExpression": "first" } option:

        /*eslint indent: ["error", 2, {"ObjectExpression": "first"}]*/
        
        var foo = { bar: 1,
                    baz: 2 };

        Compatibility

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                _.each(
                    this.hit_arr,
                    _.bind(function (id, index) {
                        this.chordsHide = [];
                        this.layoutHide = [];
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 1 day to fix
        public/js/circos.js on lines 484..512

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 252.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                _.each(
                    this.query_arr,
                    _.bind(function (id, index) {
                        this.chordsHide = [];
                        this.layoutHide = [];
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 1 day to fix
        public/js/circos.js on lines 513..541

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 252.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                $('.circos').tooltip({
                    position: {
                        my: 'left+3 bottom-3',
                        at: 'right bottom',
                        using: function(position, feedback) {
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 6 hrs to fix
        public/js/jquery_world.js on lines 49..71

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 164.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                _.each(this.chords_arr, function (obj) {
                    var slen = obj[1] + obj[2];
                    var tlen = obj[4] + obj[5];
                    $('#' + obj[0] + '_' + slen + '_' + obj[3] + '_' + tlen).show();
                });
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 2 hrs to fix
        public/js/circos.js on lines 453..457

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 91.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                        if (_.indexOf(this.chordsHide, index) == -1) {
                            var slen = obj[1] + obj[2];
                            var tlen = obj[4] + obj[5];
                            $('#' + obj[0] + '_' + slen + '_' + obj[3] + '_' + tlen).hide();
                        }
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 2 hrs to fix
        public/js/circos.js on lines 422..426

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 91.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                _.each(
                    this.new_layout,
                    _.bind(function (obj) {
                        var id = obj.id.slice(0, 3);
                        if (id == 'Hit') {
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 2 hrs to fix
        public/js/circos.js on lines 162..170

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 77.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                _.each(
                    this.new_layout,
                    _.bind(function (obj) {
                        var id = obj.id.slice(0, 3);
                        if (id == 'Que') {
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 2 hrs to fix
        public/js/circos.js on lines 171..179

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 77.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                        if (type == 'Hit') {
                            if (obj[3] == id) {
                                this.chordsHide.push(index);
                                this.layoutHide.push(obj[0]);
                            }
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 1 hr to fix
        public/js/circos.js on lines 433..438

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 60.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                        if (type == 'Que') {
                            if (obj[0] == id) {
                                this.chordsHide.push(index);
                                this.layoutHide.push(obj[3]);
                            }
        Severity: Major
        Found in public/js/circos.js and 1 other location - About 1 hr to fix
        public/js/circos.js on lines 439..444

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 60.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                var bar = this.legend
                    .selectAll('.bar')
                    .data(this.ratioHSP)
                    .enter()
                    .append('g')
        Severity: Minor
        Found in public/js/circos.js and 1 other location - About 55 mins to fix
        public/js/length_distribution.js on lines 146..152

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 54.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                        var item2 = {
                            len: len,
                            color: '#80b1d3',
                            label: label,
                            id: 'Hit_' + this.clean_id(hit.id),
        Severity: Minor
        Found in public/js/circos.js and 1 other location - About 40 mins to fix
        public/js/circos.js on lines 112..118

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 49.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

        Similar blocks of code found in 2 locations. Consider refactoring.
        Open

                    var item1 = {
                        len: len,
                        color: '#8dd3c7',
                        label: label,
                        id: 'Query_' + this.clean_id(query.id),
        Severity: Minor
        Found in public/js/circos.js and 1 other location - About 40 mins to fix
        public/js/circos.js on lines 132..138

        Duplicated Code

        Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

        Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

        When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

        Tuning

        This issue has a mass of 49.

        We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

        The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

        If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

        See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

        Refactorings

        Further Reading

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