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Commit 92c682d4 authored by magali's avatar magali
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site_libs

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202111_Rotenone/site_libs/header-attrs-2.11/header-attrs.js 0 → 100644
View file @ 92c682d4
// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
// be compatible with the behavior of Pandoc < 2.8).
document.addEventListener('DOMContentLoaded', function(e) {
var hs = document.querySelectorAll("div.section[class*='level'] > :first-child");
var i, h, a;
for (i = 0; i < hs.length; i++) {
h = hs[i];
if (!/^h[1-6]$/i.test(h.tagName)) continue; // it should be a header h1-h6
a = h.attributes;
while (a.length > 0) h.removeAttribute(a[0].name);
}
});
202111_Rotenone/site_libs/htmlwidgets-1.5.4/htmlwidgets.js 0 → 100644
View file @ 92c682d4
(function() {
// If window.HTMLWidgets is already defined, then use it; otherwise create a
// new object. This allows preceding code to set options that affect the
// initialization process (though none currently exist).
window.HTMLWidgets = window.HTMLWidgets || {};
// See if we're running in a viewer pane. If not, we're in a web browser.
var viewerMode = window.HTMLWidgets.viewerMode =
/\bviewer_pane=1\b/.test(window.location);
// See if we're running in Shiny mode. If not, it's a static document.
// Note that static widgets can appear in both Shiny and static modes, but
// obviously, Shiny widgets can only appear in Shiny apps/documents.
var shinyMode = window.HTMLWidgets.shinyMode =
typeof(window.Shiny) !== "undefined" && !!window.Shiny.outputBindings;
// We can't count on jQuery being available, so we implement our own
// version if necessary.
function querySelectorAll(scope, selector) {
if (typeof(jQuery) !== "undefined" && scope instanceof jQuery) {
return scope.find(selector);
}
if (scope.querySelectorAll) {
return scope.querySelectorAll(selector);
}
}
function asArray(value) {
if (value === null)
return [];
if ($.isArray(value))
return value;
return [value];
}
// Implement jQuery's extend
function extend(target /*, ... */) {
if (arguments.length == 1) {
return target;
}
for (var i = 1; i < arguments.length; i++) {
var source = arguments[i];
for (var prop in source) {
if (source.hasOwnProperty(prop)) {
target[prop] = source[prop];
}
}
}
return target;
}
// IE8 doesn't support Array.forEach.
function forEach(values, callback, thisArg) {
if (values.forEach) {
values.forEach(callback, thisArg);
} else {
for (var i = 0; i < values.length; i++) {
callback.call(thisArg, values[i], i, values);
}
}
}
// Replaces the specified method with the return value of funcSource.
//
// Note that funcSource should not BE the new method, it should be a function
// that RETURNS the new method. funcSource receives a single argument that is
// the overridden method, it can be called from the new method. The overridden
// method can be called like a regular function, it has the target permanently
// bound to it so "this" will work correctly.
function overrideMethod(target, methodName, funcSource) {
var superFunc = target[methodName] || function() {};
var superFuncBound = function() {
return superFunc.apply(target, arguments);
};
target[methodName] = funcSource(superFuncBound);
}
// Add a method to delegator that, when invoked, calls
// delegatee.methodName. If there is no such method on
// the delegatee, but there was one on delegator before
// delegateMethod was called, then the original version
// is invoked instead.
// For example:
//
// var a = {
// method1: function() { console.log('a1'); }
// method2: function() { console.log('a2'); }
// };
// var b = {
// method1: function() { console.log('b1'); }
// };
// delegateMethod(a, b, "method1");
// delegateMethod(a, b, "method2");
// a.method1();
// a.method2();
//
// The output would be "b1", "a2".
function delegateMethod(delegator, delegatee, methodName) {
var inherited = delegator[methodName];
delegator[methodName] = function() {
var target = delegatee;
var method = delegatee[methodName];
// The method doesn't exist on the delegatee. Instead,
// call the method on the delegator, if it exists.
if (!method) {
target = delegator;
method = inherited;
}
if (method) {
return method.apply(target, arguments);
}
};
}
// Implement a vague facsimilie of jQuery's data method
function elementData(el, name, value) {
if (arguments.length == 2) {
return el["htmlwidget_data_" + name];
} else if (arguments.length == 3) {
el["htmlwidget_data_" + name] = value;
return el;
} else {
throw new Error("Wrong number of arguments for elementData: " +
arguments.length);
}
}
// http://stackoverflow.com/questions/3446170/escape-string-for-use-in-javascript-regex
function escapeRegExp(str) {
return str.replace(/[\-\[\]\/\{\}\(\)\*\+\?\.\\\^\$\|]/g, "\\$&");
}
function hasClass(el, className) {
var re = new RegExp("\\b" + escapeRegExp(className) + "\\b");
return re.test(el.className);
}
// elements - array (or array-like object) of HTML elements
// className - class name to test for
// include - if true, only return elements with given className;
// if false, only return elements *without* given className
function filterByClass(elements, className, include) {
var results = [];
for (var i = 0; i < elements.length; i++) {
if (hasClass(elements[i], className) == include)
results.push(elements[i]);
}
return results;
}
function on(obj, eventName, func) {
if (obj.addEventListener) {
obj.addEventListener(eventName, func, false);
} else if (obj.attachEvent) {
obj.attachEvent(eventName, func);
}
}
function off(obj, eventName, func) {
if (obj.removeEventListener)
obj.removeEventListener(eventName, func, false);
else if (obj.detachEvent) {
obj.detachEvent(eventName, func);
}
}
// Translate array of values to top/right/bottom/left, as usual with
// the "padding" CSS property
// https://developer.mozilla.org/en-US/docs/Web/CSS/padding
function unpackPadding(value) {
if (typeof(value) === "number")
value = [value];
if (value.length === 1) {
return {top: value[0], right: value[0], bottom: value[0], left: value[0]};
}
if (value.length === 2) {
return {top: value[0], right: value[1], bottom: value[0], left: value[1]};
}
if (value.length === 3) {
return {top: value[0], right: value[1], bottom: value[2], left: value[1]};
}
if (value.length === 4) {
return {top: value[0], right: value[1], bottom: value[2], left: value[3]};
}
}
// Convert an unpacked padding object to a CSS value
function paddingToCss(paddingObj) {
return paddingObj.top + "px " + paddingObj.right + "px " + paddingObj.bottom + "px " + paddingObj.left + "px";
}
// Makes a number suitable for CSS
function px(x) {
if (typeof(x) === "number")
return x + "px";
else
return x;
}
// Retrieves runtime widget sizing information for an element.
// The return value is either null, or an object with fill, padding,
// defaultWidth, defaultHeight fields.
function sizingPolicy(el) {
var sizingEl = document.querySelector("script[data-for='" + el.id + "'][type='application/htmlwidget-sizing']");
if (!sizingEl)
return null;
var sp = JSON.parse(sizingEl.textContent || sizingEl.text || "{}");
if (viewerMode) {
return sp.viewer;
} else {
return sp.browser;
}
}
// @param tasks Array of strings (or falsy value, in which case no-op).
// Each element must be a valid JavaScript expression that yields a
// function. Or, can be an array of objects with "code" and "data"
// properties; in this case, the "code" property should be a string
// of JS that's an expr that yields a function, and "data" should be
// an object that will be added as an additional argument when that
// function is called.
// @param target The object that will be "this" for each function
// execution.
// @param args Array of arguments to be passed to the functions. (The
// same arguments will be passed to all functions.)
function evalAndRun(tasks, target, args) {
if (tasks) {
forEach(tasks, function(task) {
var theseArgs = args;
if (typeof(task) === "object") {
theseArgs = theseArgs.concat([task.data]);
task = task.code;
}
var taskFunc = tryEval(task);
if (typeof(taskFunc) !== "function") {
throw new Error("Task must be a function! Source:\n" + task);
}
taskFunc.apply(target, theseArgs);
});
}
}
// Attempt eval() both with and without enclosing in parentheses.
// Note that enclosing coerces a function declaration into
// an expression that eval() can parse
// (otherwise, a SyntaxError is thrown)
function tryEval(code) {
var result = null;
try {
result = eval("(" + code + ")");
} catch(error) {
if (!(error instanceof SyntaxError)) {
throw error;
}
try {
result = eval(code);
} catch(e) {
if (e instanceof SyntaxError) {
throw error;
} else {
throw e;
}
}
}
return result;
}
function initSizing(el) {
var sizing = sizingPolicy(el);
if (!sizing)
return;
var cel = document.getElementById("htmlwidget_container");
if (!cel)
return;
if (typeof(sizing.padding) !== "undefined") {
document.body.style.margin = "0";
document.body.style.padding = paddingToCss(unpackPadding(sizing.padding));
}
if (sizing.fill) {
document.body.style.overflow = "hidden";
document.body.style.width = "100%";
document.body.style.height = "100%";
document.documentElement.style.width = "100%";
document.documentElement.style.height = "100%";
if (cel) {
cel.style.position = "absolute";
var pad = unpackPadding(sizing.padding);
cel.style.top = pad.top + "px";
cel.style.right = pad.right + "px";
cel.style.bottom = pad.bottom + "px";
cel.style.left = pad.left + "px";
el.style.width = "100%";
el.style.height = "100%";
}
return {
getWidth: function() { return cel.offsetWidth; },
getHeight: function() { return cel.offsetHeight; }
};
} else {
el.style.width = px(sizing.width);
el.style.height = px(sizing.height);
return {
getWidth: function() { return el.offsetWidth; },
getHeight: function() { return el.offsetHeight; }
};
}
}
// Default implementations for methods
var defaults = {
find: function(scope) {
return querySelectorAll(scope, "." + this.name);
},
renderError: function(el, err) {
var $el = $(el);
this.clearError(el);
// Add all these error classes, as Shiny does
var errClass = "shiny-output-error";
if (err.type !== null) {
// use the classes of the error condition as CSS class names
errClass = errClass + " " + $.map(asArray(err.type), function(type) {
return errClass + "-" + type;
}).join(" ");
}
errClass = errClass + " htmlwidgets-error";
// Is el inline or block? If inline or inline-block, just display:none it
// and add an inline error.
var display = $el.css("display");
$el.data("restore-display-mode", display);
if (display === "inline" || display === "inline-block") {
$el.hide();
if (err.message !== "") {
var errorSpan = $("<span>").addClass(errClass);
errorSpan.text(err.message);
$el.after(errorSpan);
}
} else if (display === "block") {
// If block, add an error just after the el, set visibility:none on the
// el, and position the error to be on top of the el.
// Mark it with a unique ID and CSS class so we can remove it later.
$el.css("visibility", "hidden");
if (err.message !== "") {
var errorDiv = $("<div>").addClass(errClass).css("position", "absolute")
.css("top", el.offsetTop)
.css("left", el.offsetLeft)
// setting width can push out the page size, forcing otherwise
// unnecessary scrollbars to appear and making it impossible for
// the element to shrink; so use max-width instead
.css("maxWidth", el.offsetWidth)
.css("height", el.offsetHeight);
errorDiv.text(err.message);
$el.after(errorDiv);
// Really dumb way to keep the size/position of the error in sync with
// the parent element as the window is resized or whatever.
var intId = setInterval(function() {
if (!errorDiv[0].parentElement) {
clearInterval(intId);
return;
}
errorDiv
.css("top", el.offsetTop)
.css("left", el.offsetLeft)
.css("maxWidth", el.offsetWidth)
.css("height", el.offsetHeight);
}, 500);
}
}
},
clearError: function(el) {
var $el = $(el);
var display = $el.data("restore-display-mode");
$el.data("restore-display-mode", null);
if (display === "inline" || display === "inline-block") {
if (display)
$el.css("display", display);
$(el.nextSibling).filter(".htmlwidgets-error").remove();
} else if (display === "block"){
$el.css("visibility", "inherit");
$(el.nextSibling).filter(".htmlwidgets-error").remove();
}
},
sizing: {}
};
// Called by widget bindings to register a new type of widget. The definition
// object can contain the following properties:
// - name (required) - A string indicating the binding name, which will be
// used by default as the CSS classname to look for.
// - initialize (optional) - A function(el) that will be called once per
// widget element; if a value is returned, it will be passed as the third
// value to renderValue.
// - renderValue (required) - A function(el, data, initValue) that will be
// called with data. Static contexts will cause this to be called once per
// element; Shiny apps will cause this to be called multiple times per
// element, as the data changes.
window.HTMLWidgets.widget = function(definition) {
if (!definition.name) {
throw new Error("Widget must have a name");
}
if (!definition.type) {
throw new Error("Widget must have a type");
}
// Currently we only support output widgets
if (definition.type !== "output") {
throw new Error("Unrecognized widget type '" + definition.type + "'");
}
// TODO: Verify that .name is a valid CSS classname
// Support new-style instance-bound definitions. Old-style class-bound
// definitions have one widget "object" per widget per type/class of
// widget; the renderValue and resize methods on such widget objects
// take el and instance arguments, because the widget object can't
// store them. New-style instance-bound definitions have one widget
// object per widget instance; the definition that's passed in doesn't
// provide renderValue or resize methods at all, just the single method
// factory(el, width, height)
// which returns an object that has renderValue(x) and resize(w, h).
// This enables a far more natural programming style for the widget
// author, who can store per-instance state using either OO-style
// instance fields or functional-style closure variables (I guess this
// is in contrast to what can only be called C-style pseudo-OO which is
// what we required before).
if (definition.factory) {
definition = createLegacyDefinitionAdapter(definition);
}
if (!definition.renderValue) {
throw new Error("Widget must have a renderValue function");
}
// For static rendering (non-Shiny), use a simple widget registration
// scheme. We also use this scheme for Shiny apps/documents that also
// contain static widgets.
window.HTMLWidgets.widgets = window.HTMLWidgets.widgets || [];
// Merge defaults into the definition; don't mutate the original definition.
var staticBinding = extend({}, defaults, definition);
overrideMethod(staticBinding, "find", function(superfunc) {
return function(scope) {
var results = superfunc(scope);
// Filter out Shiny outputs, we only want the static kind
return filterByClass(results, "html-widget-output", false);
};
});
window.HTMLWidgets.widgets.push(staticBinding);
if (shinyMode) {
// Shiny is running. Register the definition with an output binding.
// The definition itself will not be the output binding, instead
// we will make an output binding object that delegates to the
// definition. This is because we foolishly used the same method
// name (renderValue) for htmlwidgets definition and Shiny bindings
// but they actually have quite different semantics (the Shiny
// bindings receive data that includes lots of metadata that it
// strips off before calling htmlwidgets renderValue). We can't
// just ignore the difference because in some widgets it's helpful
// to call this.renderValue() from inside of resize(), and if
// we're not delegating, then that call will go to the Shiny
// version instead of the htmlwidgets version.
// Merge defaults with definition, without mutating either.
var bindingDef = extend({}, defaults, definition);
// This object will be our actual Shiny binding.
var shinyBinding = new Shiny.OutputBinding();
// With a few exceptions, we'll want to simply use the bindingDef's
// version of methods if they are available, otherwise fall back to
// Shiny's defaults. NOTE: If Shiny's output bindings gain additional
// methods in the future, and we want them to be overrideable by
// HTMLWidget binding definitions, then we'll need to add them to this
// list.
delegateMethod(shinyBinding, bindingDef, "getId");
delegateMethod(shinyBinding, bindingDef, "onValueChange");
delegateMethod(shinyBinding, bindingDef, "onValueError");
delegateMethod(shinyBinding, bindingDef, "renderError");
delegateMethod(shinyBinding, bindingDef, "clearError");
delegateMethod(shinyBinding, bindingDef, "showProgress");
// The find, renderValue, and resize are handled differently, because we
// want to actually decorate the behavior of the bindingDef methods.
shinyBinding.find = function(scope) {
var results = bindingDef.find(scope);
// Only return elements that are Shiny outputs, not static ones
var dynamicResults = results.filter(".html-widget-output");
// It's possible that whatever caused Shiny to think there might be
// new dynamic outputs, also caused there to be new static outputs.
// Since there might be lots of different htmlwidgets bindings, we
// schedule execution for later--no need to staticRender multiple
// times.
if (results.length !== dynamicResults.length)
scheduleStaticRender();
return dynamicResults;
};
// Wrap renderValue to handle initialization, which unfortunately isn't
// supported natively by Shiny at the time of this writing.
shinyBinding.renderValue = function(el, data) {
Shiny.renderDependencies(data.deps);
// Resolve strings marked as javascript literals to objects
if (!(data.evals instanceof Array)) data.evals = [data.evals];
for (var i = 0; data.evals && i < data.evals.length; i++) {
window.HTMLWidgets.evaluateStringMember(data.x, data.evals[i]);
}
if (!bindingDef.renderOnNullValue) {
if (data.x === null) {
el.style.visibility = "hidden";
return;
} else {
el.style.visibility = "inherit";
}
}
if (!elementData(el, "initialized")) {
initSizing(el);
elementData(el, "initialized", true);
if (bindingDef.initialize) {
var result = bindingDef.initialize(el, el.offsetWidth,
el.offsetHeight);
elementData(el, "init_result", result);
}
}
bindingDef.renderValue(el, data.x, elementData(el, "init_result"));
evalAndRun(data.jsHooks.render, elementData(el, "init_result"), [el, data.x]);
};
// Only override resize if bindingDef implements it
if (bindingDef.resize) {
shinyBinding.resize = function(el, width, height) {
// Shiny can call resize before initialize/renderValue have been
// called, which doesn't make sense for widgets.
if (elementData(el, "initialized")) {
bindingDef.resize(el, width, height, elementData(el, "init_result"));
}
};
}
Shiny.outputBindings.register(shinyBinding, bindingDef.name);
}
};
var scheduleStaticRenderTimerId = null;
function scheduleStaticRender() {
if (!scheduleStaticRenderTimerId) {
scheduleStaticRenderTimerId = setTimeout(function() {
scheduleStaticRenderTimerId = null;