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diff --git a/public/javascripts/sankey-1/d3-3.5.2/d3.min.js b/public/javascripts/sankey-1/d3-3.5.2/d3.min.js
deleted file mode 100755
index ddaf546..0000000
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diff --git a/public/javascripts/sankey-1/sankey.js b/public/javascripts/sankey-1/sankey.js
deleted file mode 100755
index 2e1d292..0000000
--- a/public/javascripts/sankey-1/sankey.js
+++ /dev/null
@@ -1,397 +0,0 @@
-d3.sankey = function() {
- var sankey = {},
- nodeWidth = 24,
- nodePadding = 8,
- size = [1, 1],
- nodes = [],
- links = [],
- sinksRight = true;
-
- sankey.nodeWidth = function(_) {
- if (!arguments.length) return nodeWidth;
- nodeWidth = +_;
- return sankey;
- };
-
- sankey.nodePadding = function(_) {
- if (!arguments.length) return nodePadding;
- nodePadding = +_;
- return sankey;
- };
-
- sankey.nodes = function(_) {
- if (!arguments.length) return nodes;
- nodes = _;
- return sankey;
- };
-
- sankey.links = function(_) {
- if (!arguments.length) return links;
- links = _;
- return sankey;
- };
-
- sankey.size = function(_) {
- if (!arguments.length) return size;
- size = _;
- return sankey;
- };
-
- sankey.sinksRight = function (_) {
- if (!arguments.length) return sinksRight;
- sinksRight = _;
- return sankey;
- };
-
- sankey.layout = function(iterations) {
- computeNodeLinks();
- computeNodeValues();
- computeNodeBreadths();
- computeNodeDepths(iterations);
- return sankey;
- };
-
- sankey.relayout = function() {
- computeLinkDepths();
- return sankey;
- };
-
- // SVG path data generator, to be used as "d" attribute on "path" element selection.
- sankey.link = function() {
- var curvature = .5;
-
- function link(d) {
- var xs = d.source.x + d.source.dx,
- xt = d.target.x,
- xi = d3.interpolateNumber(xs, xt),
- xsc = xi(curvature),
- xtc = xi(1 - curvature),
- ys = d.source.y + d.sy + d.dy / 2,
- yt = d.target.y + d.ty + d.dy / 2;
-
- if (!d.cycleBreaker) {
- return "M" + xs + "," + ys
- + "C" + xsc + "," + ys
- + " " + xtc + "," + yt
- + " " + xt + "," + yt;
- } else {
- var xdelta = (1.5 * d.dy + 0.05 * Math.abs(xs - xt));
- xsc = xs + xdelta;
- xtc = xt - xdelta;
- var xm = xi(0.5);
- var ym = d3.interpolateNumber(ys, yt)(0.5);
- var ydelta = (2 * d.dy + 0.1 * Math.abs(xs - xt) + 0.1 * Math.abs(ys - yt)) * (ym < (size[1] / 2) ? -1 : 1);
- return "M" + xs + "," + ys
- + "C" + xsc + "," + ys
- + " " + xsc + "," + (ys + ydelta)
- + " " + xm + "," + (ym + ydelta)
- + "S" + xtc + "," + yt
- + " " + xt + "," + yt;
-
- }
- }
-
- link.curvature = function(_) {
- if (!arguments.length) return curvature;
- curvature = +_;
- return link;
- };
-
- return link;
- };
-
- // Populate the sourceLinks and targetLinks for each node.
- // Also, if the source and target are not objects, assume they are indices.
- function computeNodeLinks() {
- nodes.forEach(function(node) {
- // Links that have this node as source.
- node.sourceLinks = [];
- // Links that have this node as target.
- node.targetLinks = [];
- });
- links.forEach(function(link) {
- var source = link.source,
- target = link.target;
- if (typeof source === "number") source = link.source = nodes[link.source];
- if (typeof target === "number") target = link.target = nodes[link.target];
- source.sourceLinks.push(link);
- target.targetLinks.push(link);
- });
- }
-
- // Compute the value (size) of each node by summing the associated links.
- function computeNodeValues() {
- nodes.forEach(function(node) {
- node.value = Math.max(
- d3.sum(node.sourceLinks, value),
- d3.sum(node.targetLinks, value)
- );
- });
- }
-
- // Iteratively assign the breadth (x-position) for each node.
- // Nodes are assigned the maximum breadth of incoming neighbors plus one;
- // nodes with no incoming links are assigned breadth zero, while
- // nodes with no outgoing links are assigned the maximum breadth.
- function computeNodeBreadths() {
- var remainingNodes = nodes,
- nextNodes,
- x = 0;
-
- // Work from left to right.
- // Keep updating the breath (x-position) of nodes that are target of recently updated nodes.
- while (remainingNodes.length && x < nodes.length) {
- nextNodes = [];
- remainingNodes.forEach(function(node) {
- node.x = x;
- node.dx = nodeWidth;
- node.sourceLinks.forEach(function(link) {
- if (nextNodes.indexOf(link.target) < 0 && !link.cycleBreaker) {
- nextNodes.push(link.target);
- }
- });
- });
- if (nextNodes.length == remainingNodes.length) {
- // There must be a cycle here. Let's search for a link that breaks it.
- findAndMarkCycleBreaker(nextNodes);
- // Start over.
- // TODO: make this optional?
- return computeNodeBreadths();
- }
- else {
- remainingNodes = nextNodes;
- ++x;
- }
- }
-
- // Optionally move pure sinks always to the right.
- if (sinksRight) {
- moveSinksRight(x);
- }
-
- scaleNodeBreadths((size[0] - nodeWidth) / (x - 1));
- }
-
- // Find a link that breaks a cycle in the graph (if any).
- function findAndMarkCycleBreaker(nodes) {
- // Go through all nodes from the given subset and traverse links searching for cycles.
- var link;
- for (var n=nodes.length - 1; n >= 0; n--) {
- link = depthFirstCycleSearch(nodes[n], []);
- if (link) {
- return link;
- }
- }
-
- // Depth-first search to find a link that is part of a cycle.
- function depthFirstCycleSearch(cursorNode, path) {
- var target, link;
- for (var n = cursorNode.sourceLinks.length - 1; n >= 0; n--) {
- link = cursorNode.sourceLinks[n];
- if (link.cycleBreaker) {
- // Skip already known cycle breakers.
- continue;
- }
-
- // Check if target of link makes a cycle in current path.
- target = link.target;
- for (var l = 0; l < path.length; l++) {
- if (path[l].source == target) {
- // We found a cycle. Search for weakest link in cycle
- var weakest = link;
- for (; l < path.length; l++) {
- if (path[l].value < weakest.value) {
- weakest = path[l];
- }
- }
- // Mark weakest link as (known) cycle breaker and abort search.
- weakest.cycleBreaker = true;
- return weakest;
- }
- }
-
- // Recurse deeper.
- path.push(link);
- link = depthFirstCycleSearch(target, path);
- path.pop();
- // Stop further search if we found a cycle breaker.
- if (link) {
- return link;
- }
- }
- }
- }
-
-
- function moveSourcesRight() {
- nodes.forEach(function(node) {
- if (!node.targetLinks.length) {
- node.x = d3.min(node.sourceLinks, function(d) { return d.target.x; }) - 1;
- }
- });
- }
-
- function moveSinksRight(x) {
- nodes.forEach(function(node) {
- if (!node.sourceLinks.length) {
- node.x = x - 1;
- }
- });
- }
-
- function scaleNodeBreadths(kx) {
- nodes.forEach(function(node) {
- node.x *= kx;
- });
- }
-
- // Compute the depth (y-position) for each node.
- function computeNodeDepths(iterations) {
- // Group nodes by breath.
- var nodesByBreadth = d3.nest()
- .key(function(d) { return d.x; })
- .sortKeys(d3.ascending)
- .entries(nodes)
- .map(function(d) { return d.values; });
-
- //
- initializeNodeDepth();
- resolveCollisions();
- computeLinkDepths();
- for (var alpha = 1; iterations > 0; --iterations) {
- relaxRightToLeft(alpha *= .99);
- resolveCollisions();
- computeLinkDepths();
- relaxLeftToRight(alpha);
- resolveCollisions();
- computeLinkDepths();
- }
-
- function initializeNodeDepth() {
- // Calculate vertical scaling factor.
- var ky = d3.min(nodesByBreadth, function(nodes) {
- return (size[1] - (nodes.length - 1) * nodePadding) / d3.sum(nodes, value);
- });
-
- nodesByBreadth.forEach(function(nodes) {
- nodes.forEach(function(node, i) {
- node.y = i;
- node.dy = node.value * ky;
- });
- });
-
- links.forEach(function(link) {
- link.dy = link.value * ky;
- });
- }
-
- function relaxLeftToRight(alpha) {
- nodesByBreadth.forEach(function(nodes, breadth) {
- nodes.forEach(function(node) {
- if (node.targetLinks.length) {
- // Value-weighted average of the y-position of source node centers linked to this node.
- var y = d3.sum(node.targetLinks, weightedSource) / d3.sum(node.targetLinks, value);
- node.y += (y - center(node)) * alpha;
- }
- });
- });
-
- function weightedSource(link) {
- return (link.source.y + link.sy + link.dy / 2) * link.value;
- }
- }
-
- function relaxRightToLeft(alpha) {
- nodesByBreadth.slice().reverse().forEach(function(nodes) {
- nodes.forEach(function(node) {
- if (node.sourceLinks.length) {
- // Value-weighted average of the y-positions of target nodes linked to this node.
- var y = d3.sum(node.sourceLinks, weightedTarget) / d3.sum(node.sourceLinks, value);
- node.y += (y - center(node)) * alpha;
- }
- });
- });
-
- function weightedTarget(link) {
- return (link.target.y + link.ty + link.dy / 2) * link.value;
- }
- }
-
- function resolveCollisions() {
- nodesByBreadth.forEach(function(nodes) {
- var node,
- dy,
- y0 = 0,
- n = nodes.length,
- i;
-
- // Push any overlapping nodes down.
- nodes.sort(ascendingDepth);
- for (i = 0; i < n; ++i) {
- node = nodes[i];
- dy = y0 - node.y;
- if (dy > 0) node.y += dy;
- y0 = node.y + node.dy + nodePadding;
- }
-
- // If the bottommost node goes outside the bounds, push it back up.
- dy = y0 - nodePadding - size[1];
- if (dy > 0) {
- y0 = node.y -= dy;
-
- // Push any overlapping nodes back up.
- for (i = n - 2; i >= 0; --i) {
- node = nodes[i];
- dy = node.y + node.dy + nodePadding - y0;
- if (dy > 0) node.y -= dy;
- y0 = node.y;
- }
- }
- });
- }
-
- function ascendingDepth(a, b) {
- return a.y - b.y;
- }
- }
-
- // Compute y-offset of the source endpoint (sy) and target endpoints (ty) of links,
- // relative to the source/target node's y-position.
- function computeLinkDepths() {
- nodes.forEach(function(node) {
- node.sourceLinks.sort(ascendingTargetDepth);
- node.targetLinks.sort(ascendingSourceDepth);
- });
- nodes.forEach(function(node) {
- var sy = 0, ty = 0;
- node.sourceLinks.forEach(function(link) {
- link.sy = sy;
- sy += link.dy;
- });
- node.targetLinks.forEach(function(link) {
- link.ty = ty;
- ty += link.dy;
- });
- });
-
- function ascendingSourceDepth(a, b) {
- return a.source.y - b.source.y;
- }
-
- function ascendingTargetDepth(a, b) {
- return a.target.y - b.target.y;
- }
- }
-
- // Y-position of the middle of a node.
- function center(node) {
- return node.y + node.dy / 2;
- }
-
- // Value property accessor.
- function value(x) {
- return x.value;
- }
-
- return sankey;
-};
\ No newline at end of file
diff --git a/public/javascripts/sankeyNetwork-binding-0.2.8/sankeyNetwork.js b/public/javascripts/sankeyNetwork-binding-0.2.8/sankeyNetwork.js
deleted file mode 100755
index d059090..0000000
--- a/public/javascripts/sankeyNetwork-binding-0.2.8/sankeyNetwork.js
+++ /dev/null
@@ -1,230 +0,0 @@
-HTMLWidgets.widget({
-
- name: "sankeyNetwork",
-
- type: "output",
-
- initialize: function(el, width, height) {
-
- d3.select(el).append("svg")
- .style("width", "100%")
- .style("height", "100%");
-
- return {
- sankey: d3.sankey(),
- x: null
- };
- },
-
- resize: function(el, width, height, instance) {
- /* handle resizing now through the viewBox
- d3.select(el).select("svg")
- .attr("width", width)
- .attr("height", height + height * 0.05);
-
- this.renderValue(el, instance.x, instance);
- */
- },
-
- renderValue: function(el, x, instance) {
-
- // save the x in our instance (for calling back from resize)
- instance.x = x;
-
- // alias sankey and options
- var sankey = instance.sankey;
- var options = x.options;
-
- // convert links and nodes data frames to d3 friendly format
- var links = HTMLWidgets.dataframeToD3(x.links);
- var nodes = HTMLWidgets.dataframeToD3(x.nodes);
-
-
- // margin handling
- // set our default margin to be 20
- // will override with x.options.margin if provided
- var margin = {top: 20, right: 20, bottom: 20, left: 20};
- // go through each key of x.options.margin
- // use this value if provided from the R side
- Object.keys(x.options.margin).map(function(ky){
- if(x.options.margin[ky] !== null) {
- margin[ky] = x.options.margin[ky];
- }
- // set the margin on the svg with css style
- // commenting this out since not correct
- // s.style(["margin",ky].join("-"), margin[ky]);
- });
-
- // get the width and height
- var width = el.getBoundingClientRect().width - margin.right - margin.left;
- var height = el.getBoundingClientRect().height - margin.top - margin.bottom;
-
- var color = eval(options.colourScale);
-
- var color_node = function color_node(d){
- if (d.group){
- return color(d.group.replace(/ .*/, ""));
- } else {
- return "#cccccc";
- }
- }
-
- var color_link = function color_link(d){
- if (d.group){
- return color(d.group.replace(/ .*/, ""));
- } else {
- return "#000000";
- }
- }
-
- var opacity_link = function opacity_link(d){
- if (d.group){
- return 0.7;
- } else {
- return 0.2;
- }
- }
-
-
- var formatNumber = d3.format(",.0f"),
- format = function(d) { return formatNumber(d); }
-
- // create d3 sankey layout
- sankey
- .nodes(d3.values(nodes))
- .links(links)
- .size([width, height])
- .nodeWidth(options.nodeWidth)
- .nodePadding(options.nodePadding)
- .layout(32);
-
- // select the svg element and remove existing children
- d3.select(el).select("svg").selectAll("*").remove();
- // append g for our container to transform by margin
- var svg = d3.select(el).select("svg").append("g")
- .attr("transform", "translate(" + margin.left + "," + margin.top + ")");;
-
- // draw path
- var path = sankey.link();
-
- // draw links
- var link = svg.selectAll(".link")
- .data(sankey.links())
-
- link.enter().append("path")
- .attr("class", "link")
-
- link
- .attr("d", path)
- .style("stroke-width", function(d) { return Math.max(1, d.dy); })
- .style("fill", "none")
- .style("stroke", color_link)
- .style("stroke-opacity", opacity_link)
- .sort(function(a, b) { return b.dy - a.dy; })
- .on("mouseover", function(d) {
- d3.select(this)
- .style("stroke-opacity", function(d){return opacity_link(d) + 0.3});
- })
- .on("mouseout", function(d) {
- d3.select(this)
- .style("stroke-opacity", opacity_link);
- });
-
- // add backwards class to cycles
- link.classed('backwards', function (d) { return d.target.x < d.source.x; });
-
- svg.selectAll(".link.backwards")
- .style("stroke-dasharray","9,1")
- .style("stroke","#402")
-
- // draw nodes
- var node = svg.selectAll(".node")
- .data(sankey.nodes())
-
- node.enter().append("g")
- .attr("class", "node")
- .attr("transform", function(d) { return "translate(" +
- d.x + "," + d.y + ")"; })
- .call(d3.behavior.drag()
- .origin(function(d) { return d; })
- .on("dragstart", function() { this.parentNode.appendChild(this); })
- .on("drag", dragmove));
-
- // note: u2192 is right-arrow
- link.append("title")
- .text(function(d) { return d.source.name + " \u2192 " + d.target.name +
- "\n" + format(d.value) + " " + options.units; });
-
- node.append("rect")
- .attr("height", function(d) { return d.dy; })
- .attr("width", sankey.nodeWidth())
- .style("fill", function(d) {
- return d.color = color_node(d); })
- .style("stroke", function(d) { return d3.rgb(d.color).darker(2); })
- .style("opacity", 0.9)
- .style("cursor", "move")
- .append("title")
- .text(function(d) { return d.name + "\n" + format(d.value) +
- " " + options.units; });
-
- node.append("text")
- .attr("x", -6)
- .attr("y", function(d) { return d.dy / 2; })
- .attr("dy", ".35em")
- .attr("text-anchor", "end")
- .attr("transform", null)
- .text(function(d) { return d.name; })
- .style("font-size", options.fontSize + "px")
- .style("font-family", options.fontFamily ? options.fontFamily : "inherit")
- .filter(function(d) { return d.x < width / 2; })
- .attr("x", 6 + sankey.nodeWidth())
- .attr("text-anchor", "start");
-
-
- // adjust viewBox to fit the bounds of our tree
- var s = d3.select(svg[0][0].parentNode);
- s.attr(
- "viewBox",
- [
- d3.min(
- s.selectAll('g')[0].map(function(d){
- return d.getBoundingClientRect().left
- })
- ) - s.node().getBoundingClientRect().left - margin.right,
- d3.min(
- s.selectAll('g')[0].map(function(d){
- return d.getBoundingClientRect().top
- })
- ) - s.node().getBoundingClientRect().top - margin.top,
- d3.max(
- s.selectAll('g')[0].map(function(d){
- return d.getBoundingClientRect().right
- })
- ) -
- d3.min(
- s.selectAll('g')[0].map(function(d){
- return d.getBoundingClientRect().left
- })
- ) + margin.left + margin.right,
- d3.max(
- s.selectAll('g')[0].map(function(d){
- return d.getBoundingClientRect().bottom
- })
- ) -
- d3.min(
- s.selectAll('g')[0].map(function(d){
- return d.getBoundingClientRect().top
- })
- ) + margin.top + margin.bottom
- ].join(",")
- );
-
-
- function dragmove(d) {
- d3.select(this).attr("transform", "translate(" + d.x + "," +
- (d.y = Math.max(0, Math.min(height - d.dy, d3.event.y))) + ")");
- sankey.relayout();
- link.attr("d", path);
- }
- },
-});
diff --git a/public/resources/github/index.html b/public/resources/github/index.html
deleted file mode 100644
index 842a06d..0000000
--- a/public/resources/github/index.html
+++ /dev/null
@@ -1,366 +0,0 @@
-
-
-
- Code and Data
-
-
-
-
-
-
subscribe
-
To receive updates from this site, you can
- subscribe to the RSS feed of all updates to the site in an RSS feed reader
-
search
-
-
-
-
-
-