MediaWiki:Lipoquality.js: Difference between revisions

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// Last-Update: 2020/03/23
// html /////////////////////////////////////////////////////////////////////////////////////////////////////////
// html /////////////////////////////////////////////////////////////////////////////////////////////////////////
// <span id="search"></span><span id="show"></span>
// <span id="search"></span><span id="show"></span>
/////////////////////////////////////////////////////////////////////////////////////////////////////////////////
//
/////////////////////////////////////////////////////////////////////////////////////////////////////////////////
/////////////////////////////////////////////////////////////////////////////////////////////////////////////////


// external script //////////////////////////////////////////////////////////////////////////////////////////////
// external script //////////////////////////////////////////////////////////////////////////////////////////////
mw.loader.load('https://ajax.googleapis.com/ajax/libs/jquery/1.11.3/jquery.min.js', "text/javascript");
mw.loader.load( ['jquery.ui.sortable'] );
mw.loader.load('https://code.highcharts.com/stock/highstock.js', "text/javascript");
mw.loader.load('https://code.highcharts.com/stock/highstock.js', "text/javascript");
importScript( 'MediaWiki:LipoqualityCommon.js' );
importScript( 'MediaWiki:LipoqualityGet.js'    );
importScript( 'MediaWiki:LipoqualitySearch.js' );
importScript( 'MediaWiki:LipoqualityChart.js'  );


// initialize //////////////////////////////////////////////////////////////////////////////////////////////////
// initialize //////////////////////////////////////////////////////////////////////////////////////////////////
addOnloadHook(init);  
addOnloadHook(lipoqulityInit);
 
var gChartType;
var gDataType;


function init()
// 初期化 //////////////////////////////////////////////////////////////////////////////////////////////////////
function lipoqulityInit()
{
{
// highstock.jsに依存するため、別で読み込む
// highstock.jsに依存するため、別で読み込む
Line 16: Line 27:
heatmapJS.src = "https://code.highcharts.com/modules/heatmap.js";
heatmapJS.src = "https://code.highcharts.com/modules/heatmap.js";
document.getElementsByTagName("head")[0].appendChild(heatmapJS);
document.getElementsByTagName("head")[0].appendChild(heatmapJS);
var exportingJS = document.createElement("script");
exportingJS.src = "https://code.highcharts.com/modules/exporting.js";
document.getElementsByTagName("head")[0].appendChild(exportingJS);


// 検索、表示、チェックボタンを作成
// 検索ボタン
var searchButton = document.createElement("input");
var searchButton = document.createElement("input");
searchButton.value = "search";
searchButton.value   = "search";
searchButton.id   = "searchButton";
searchButton.id       = "searchButton";
searchButton.type = "button";
searchButton.type     = "button";
searchButton.onclick = function(){search()};
searchButton.disabled = true;
searchButton.style.width = "100%";
searchButton.onclick = function(){
var sampleSource = document.getElementById("samplesource").value;
var sampleType  = document.getElementById("sampletype").value;
var lipidClass  = document.getElementById("lipidclass").value;
gDataType        = document.getElementById("datatype").value;
search(sampleSource, sampleType, lipidClass, gDataType);
};
document.getElementById("search").appendChild(searchButton);
document.getElementById("search").appendChild(searchButton);
// グラフ表示ボタン
var showButton = document.createElement("input");
var showButton = document.createElement("input");
showButton.value = "show";
showButton.value = "show graph";
showButton.id    = "showButton";
showButton.id    = "showButton";
showButton.type  = "button";
showButton.type  = "button";
showButton.onclick = function(){showChart()};
showButton.disabled = true;
showButton.onclick = function(){barColor = DEFAULT_BAR_COLOR; document.getElementById('drawing').style.display = "block"; window.setTimeout( function(){showChart(getSelectedIDs(), gDataType); document.getElementById('drawing').style.display = "none"; }, 10 );};
document.getElementById("show").appendChild(showButton);
document.getElementById("show").appendChild(showButton);
// チェックボタン
var checkButton = document.createElement("input");
checkButton.value = "all check/uncheck";
checkButton.id    = "allswitch";
checkButton.type  = "button";
checkButton.onclick = function(){checkAllResult()};
document.getElementById("check").appendChild(checkButton);
// ダウンロードボタン
var downloadFileName = "lipodata.txt";
var downloadLink = document.createElement("a");
downloadLink.href = "#";
downloadLink.download = downloadFileName;
downloadLink.id = "downloadLink";
downloadLink.onclick = function(){
    var blob = new Blob([ getDownloadData(getSelectedIDs()) ], { "type" : "text/plain" });
    if (window.navigator.msSaveBlob) {
        window.navigator.msSaveBlob(blob, downloadFileName);
        window.navigator.msSaveOrOpenBlob(blob, downloadFileName);
    } else {
        document.getElementById("downloadLink").href = window.URL.createObjectURL(blob);
    }
};
document.getElementById("check").appendChild(downloadLink);
var downloadButton = document.createElement("input");
downloadButton.value = "download checked";
downloadButton.type  = "button";
downloadButton.style = "margin-left: 1em";
downloadButton.disabled = true;
downloadButton.id    = "downloadButton";
downloadLink.appendChild(downloadButton);
document.getElementById("graphform").style.display = "none";
// コンポーネント初期化
lipoqulityChartInit();
// コンボボックスの初期化
// setCombobox('SampleSource');
// setCombobox('SampleType');
// setCombobox('LipidClass');
retrieveSelectionList(setCombobox);
// 全データの取得
retrieveAllDataFromText(hasRetrievedAllData);
}
// 全データの取得が完了した後の処理 /////////////////////////////////////
// return なし
function hasRetrievedAllData()
{
// GETメソッドによる検索を行う場合の処理 /////////////////////////////
var query  = window.location.search.substring(1);
var params = query.split('&');
var sampleSource = "All";
var sampleType  = "All";
var lipidClass  = "";
var chain        = "";
var chart        = "";
var species      = "";
var sampleName  = "";
// パラメータの取得
// ss = SampleSource - デフォルトはAll
// st = SampleType - デフォルトはAll
// lc = LipidClass - デフォルトは空文字。この文字列が入っていないと、検索は行わない
// chain = Lipid chain - chainグラフの表示には必須項目。16:0/16:0/16:0のようにスラッシュ区切り
for(var i = 0; i < params.length; i++){
var w = params[i].split('=');
var name  = decodeURIComponent(w[0]);
var value = decodeURIComponent(w[1]);
if(name == "ss"){ // sample source
sampleSource = value;
} else if(name == "st"){ // sample type
sampleType = value;
} else if(name == "lc"){ // lipid class
lipidClass = value;
} else if(name == "ct"){ // chart type
chart = value;
} else if(name == "sp"){ // species
species = value;
} else if(name == "sn"){ // sample name
sampleName = value;
} else if(name == "dt"){
gDataType = value;
}
}
// speciesが指定された場合、対象データ以外を削除する ///////////
if(species.length > 0){
var spReg = new RegExp(translateForReg(species), "i");
for(key in gAllData){
if(!spReg.test(key)){ // speciesが合致するか
delete gAllData[key];
}
}
}
////////////////////////////////////////////////////////////////
var index = lipidClass.indexOf(" ");
if(index > 0){
chain = lipidClass.substring(index+1);
lipidClass = lipidClass.substring(0, index);
} else {
index = lipidClass.indexOf("(");
if(index >= 0){
chain = lipidClass.substring(index+1, lipidClass.length-1);
lipidClass = lipidClass.substring(0, index);
}
}
chain = chain.replace(/^\(/g,"");
chain = chain.replace(/[_]/g,"/");
if(lipidClass.indexOf("Cer-") < 0){
// chain = chain.replace(/\)$/g,"");
chain = chain.replace(/[)(]/g,"/");
}
chain = chain.replace(/\/\//g,"/");
if(chart == "c" && chain.length > 0){
// lipidclass基準の棒グラフを表示
selectCombobox([sampleSource, sampleType, lipidClass, gDataType]);
var result = retrieveChainData(sampleName, sampleSource, sampleType, lipidClass, chain, gDataType); // speciesからsamplenameに変更
if(result.x.length > 0){
showChainChart(result);
}
} else if(chart == "b" && lipidClass.length > 0){
// bar(棒グラフ)を表示
selectCombobox([sampleSource, sampleType, lipidClass, gDataType]);
search(sampleSource, sampleType, lipidClass, gDataType);
if(document.getElementsByClassName("results").length > 0){
document.getElementById('allswitch').click();
document.getElementById('bar').checked = true;
showChart(getSelectedIDs(), gDataType);
}
}


setCombobox('Classification');
document.getElementById('loading').style.display = "none";
setCombobox('Sample');
// 検索ボタンは有効化しておく
setCombobox('Type');
document.getElementById("searchButton").disabled = false;
}
}
function getSelectedIDs()
{
var targets = [];
var boxes = document.getElementsByName('target');
for(var i = 0; i < boxes.length; i ++){
if(boxes[i].checked)
targets.push(boxes[i].value);
}
if(targets.length == 0){
alert("選択してください");
return [];
}
return targets;
}
// 検索ボックスの初期化 ///////////////////////////////////////////////////////////////////////////////////////////////////////////////
// param name カテゴリ名
// return なし
function setCombobox(name)
function setCombobox(name)
{
{
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var dom = parser.parseFromString(this.response.trim(), "text/xml");
var dom = parser.parseFromString(this.response.trim(), "text/xml");
var text = dom.getElementsByTagName("rev");
var text = dom.getElementsByTagName("rev");
console.log(dom);
var lines = text[0].textContent.split("\n");
var lines = text[0].textContent.split("\n");
var select = document.getElementById(name.toLowerCase());
var select = document.getElementById(name.toLowerCase());
if(name != 'Type')
if(name != 'LipidClass')
lines.unshift('All');
lines.unshift('All');
for(var i = 0; i < lines.length; i ++){
for(var i = 0; i < lines.length; i ++){
Line 66: Line 246:
}
}


// search
// AJAXを使って、コンボボックスの選択項目を取得する
xmlHttpRequest.open('GET', url, true);
xmlHttpRequest.open('GET', url, true);
xmlHttpRequest.responseType = 'text';
xmlHttpRequest.responseType = 'text';
xmlHttpRequest.send(null);
xmlHttpRequest.send(null);
}
}
function escape(text)
var globalList = null;
function setCombobox()
{
{
return text.replace(/&/g, "&amp;").replace(/</g, "&lt;").replace(/>/g, "&gt;");
document.getElementById("samplesource").onchange  = function(){ setNames() };
document.getElementById("sampletype").onchange    = function(){ setLipidcategories() };
document.getElementById("lipidcategory").onchange = function(){ setLipidclassess() };
 
var keys = Object.keys(gListData);
appendOption("samplesource", "All");
for(var i = 0; i < keys.length; i ++){
appendOption("samplesource", keys[i]);
}
 
setNames();
}
}
function attrEscape(text)
 
function appendOption(id, value)
{
{
if(isFinite(text))
var parent = document.getElementById(id);
return text;
var op = document.createElement("option");
return text.replace(/&/g, "&amp;").replace(/</g, "&lt;").replace(/>/g, "&gt;").replace(/"/g, "&quot;").replace(/'/g, "&rsquo;");
op.valuie = value;
op.textContent = value;
parent.appendChild(op);
}
}
function search()
function removeAll(id)
{
{
document.getElementById("searchButton").disabled = true;
parent = document.getElementById(id);
document.getElementById('hit').innerHTML = '';
while(parent.lastChild){
 
parent.removeChild(parent.lastChild);
var classification = document.getElementById("classification").value;
var sample  = document.getElementById("sample").value;
var type    = document.getElementById("type").value;
 
var url = 'https://script.google.com/macros/s/AKfycbzx6dDKYI8fDsEpKJtHCtsjIGYS3sgfEFIuLbN9zJb6ba_yxAAs/exec?classification=' + classification + '&sample=' + sample + '&type=' + type + '&q=search';
// var url = '/lipo/json.txt'
 
var xmlHttpRequest = new XMLHttpRequest();
xmlHttpRequest.onreadystatechange = function()
{
var root = document.getElementById('result');
// remove old elements
root.textContent = '';
for(var i = root.childNodes.length-1; i >= 0; i --)
root.removeChild(root.childNodes[i]);
 
var READYSTATE_COMPLETED = 4;
if(this.readyState == READYSTATE_COMPLETED){
var HTTP_STATUS_OK = 200;
if(this.status == HTTP_STATUS_OK ) {
// success
var result = JSON.parse(escape(this.response));
document.getElementById('hit').innerHTML = 'result. ' + result.length + ' hit(s).';
for(var i = 0; i < result.length; i ++){
var check = document.createElement('input');
check.type = 'checkbox';
check.id = result[i].replace(/"/g, "&quot");
check.value = result[i].replace(/"/g, "&quot");
check.name  = 'target';
root.appendChild(check);
var title = document.createElement('label');
title.setAttribute('for', result[i]);
title.innerHTML = result[i];
root.appendChild(title);
root.appendChild(document.createElement('br'));
}
} else {
// error
root.textContent = 'search failed. ' + this.status + ':' + this.statusText;
}
document.getElementById("searchButton").disabled = false;
}
}
}
// search
xmlHttpRequest.open('GET', url, true);
xmlHttpRequest.responseType = 'text';
xmlHttpRequest.send(null);
var root = document.getElementById('result');
root.textContent = 'Searching...';
}
}
function showChart()
function getRegExp(id)
{
{
var targets = '';
var item = document.getElementById(id).value;
var boxes = document.getElementsByName('target');
var regexp;
for(var i = 0; i < boxes.length; i ++){
if(item == "All"){
if(boxes[i].checked)
regexp = new RegExp('.*');
targets += ',' + boxes[i].value;
} else {
regexp = new RegExp("^" + item.replace("(","\\(").replace(")","\\)") + "$");
}
}
if(targets.length == 0){
return regexp;
alert("選択してください");
}
return;
function setNames()
{
removeAll("sampletype");
globalList = [];
getSelectionList([getRegExp("samplesource"), null, null], gListData, 0, 0);
globalList.sort();
appendOption("sampletype", "All");
for(var i = 0; i < globalList.length; i ++){
appendOption("sampletype", globalList[i]);
}
}
targets = targets.substring(1);


document.getElementById("showButton").disabled = true;
setLipidcategories();
var chartType;
}
if(document.getElementById('bar').checked)
function setLipidcategories()
chartType = 'bar';
{
else
removeAll("lipidcategory");
chartType = 'heatmap';
globalList = [];
var url = 'https://script.google.com/macros/s/AKfycbzx6dDKYI8fDsEpKJtHCtsjIGYS3sgfEFIuLbN9zJb6ba_yxAAs/exec?id=' + targets + '&type=' + chartType + '&q=data';
getSelectionList([getRegExp("samplesource"), getRegExp("sampletype"), null], gListData, 1, 0);
//var url = '/lipo/data.php?id=' +  targets + '&type=' + chartType + '&q=data';
globalList.sort();
 
appendOption("lipidcategory", "All");
var xmlHttpRequest = new XMLHttpRequest();
for(var i = 0; i < globalList.length; i ++){
xmlHttpRequest.onreadystatechange = function()
appendOption("lipidcategory", globalList[i]);
{
var root = document.getElementById('container');
// remove old elements
root.textContent = '';
for(var i = root.childNodes.length-1; i >= 0; i --)
root.removeChild(root.childNodes[i]);
 
var READYSTATE_COMPLETED = 4;
var HTTP_STATUS_OK = 200;
if(this.readyState == READYSTATE_COMPLETED){
if(this.status == HTTP_STATUS_OK) {
    // success
  var result = JSON.parse(escape(this.response));
if(chartType == 'bar')
showBarChart(result);
else
showHeatmap(result);
} else {
// error
root.textContent = 'retrieving failed. ' + this.status + ':' + this.statusText;
}
document.getElementById("showButton").disabled = false;
}
}
}
// retrieving
xmlHttpRequest.open('GET', url, true);
xmlHttpRequest.responseType = 'text';
xmlHttpRequest.send(null);
var root = document.getElementById('container');
root.textContent = 'Retrieving...';


setLipidclassess();
}
}
var gBarData;
function setLipidclassess()
function getInchiOnBar(seq, x)
{
{
window.open("http://jcbl.jp/","new");
removeAll("lipidclass");
console.log(seq + "/" + x + " => " + gBarData[seq][x]);
globalList = [];
getSelectionList([getRegExp("samplesource"), getRegExp("sampletype"), getRegExp("lipidcategory")], gListData, 2, 0);
globalList.sort();
for(var i = 0; i < globalList.length; i ++){
appendOption("lipidclass", globalList[i]);
}
}
}
function showBarChart(result)
function getSelectionList(patterns, obj, depth, level)
{
{
gBarData = [];
if(level == 2){
var root = document.getElementById('container');
// last
for(var i = 0; i < result.length; i ++){
var targets = Object.keys(obj);
gBarData[i] = [];
for(var i = 0; i < targets.length; i ++){
// データの整理
if(patterns[level].test(targets[i])){
var data = [];
for(var j = 0; j < obj[targets[i]].length; j ++){
for(var j = 0; j < result[i].data.length; j ++){
if(globalList.indexOf(obj[targets[i]][j]) == -1)
data[j] = [attrEscape(result[i].data[j][2]), attrEscape(result[i].data[j][3])];
globalList.push(obj[targets[i]][j]);
gBarData[i][j] = result[i].data[j][5]; // InChIキー
}
}
}
}
 
} else {
// barchartの追加
// sub
var parent = document.createElement('div');
var keys = Object.keys(obj);
parent.id = 'container' + i;
for(var i = 0; i < keys.length; i ++){
root.appendChild(parent);
if(patterns[level].test(keys[i])){
var chart = new Highcharts.Chart({
if(level == depth){
chart: {
var targets = Object.keys(obj[keys[i]][0]);
type: 'column',
for(var j = 0; j < targets.length; j ++){
renderTo: parent,
if(globalList.indexOf(targets[j]) == -1)
height: 250,
globalList.push(targets[j]);
},
title: {
text: (i+1) + '.' + attrEscape(result[i].title)
},
xAxis: {
type: 'category',
labels: {
rotation: -90,
style: {
fontSize: '11px',
fontFamily: 'Verdana, sans-serif'
}
}
},
} else {
title: {
getSelectionList(patterns, obj[keys[i]][0], depth, level+1);
text: '分子種'
},
},
scrollbar: {
enabled: true
},
yAxis: {
min: 0,
max: 100,
title: {
text: 'Height'
}
}
},
}
legend: {
}
enabled: false
},
tooltip: {
pointFormat: '<b>{point.y:.1f}</b>'
},
series: [{
name: 'Population',
data: data,
events: {
  click: function(event) {
//alert(event.point.name);
var index = event.target.farthestViewportElement.parentNode.parentElement.id.replace("container","");
getInchiOnBar(index, event.point.x);
  }
}
}]
});
}
}
}
}
var gHeatmapData;
 
function getInchiOnHeatmap(seq, x, y)
// 指定されたコンボボックスの値をセットする /////////////////////////////////////
// param targets - 選択するSampleSource, SampleType, LipidClassの項目値
// return なし
function selectCombobox(targets)
{
{
window.open("http://jcbl.jp/","new");
var ids = ["samplesource", "sampletype", "lipidclass", "datatype"];
console.log(seq + "/" + y + "/" + x + " => " + gHeatmapData[seq][y][x]);
 
// 一つでもコンボボックスの初期化が終わっていなければ、処理を後回しにする
var counter = 1;
for(var i = 0; i < ids.length; i ++)
counter *= document.getElementById(ids[i]).options.length;
if(counter == 0){
window.setTimeout( function() { selectCombobox(targets) }, 50 );
return;
}
 
// コンボボックスの値をセットする
for(var i = 0; i < ids.length; i ++){
var cb = document.getElementById(ids[i]);
for(var j = 0; j < cb.options.length; j ++){
if(cb.options[j].value == targets[i]){
cb.selectedIndex = j;
break;
}
}
}
}
}
function showHeatmap(result)
// 検索 ///////////////////////////////////////////////////////////////////////////////////////////////////////////////
// param sampleSource - 検索対象のSampleSource
// param sampleType  - 検索対象のSampleType
// param lipidClass  - 検索対象のLipidClass
// return なし
function search(sampleSource, sampleType, lipidClass, dataType)
{
{
gHeatmapData = [];
// 検索ボタン等を無効化しておく
var root = document.getElementById('container');
document.getElementById("searchButton").disabled      = true;
for(var i = 0; i < result.length; i ++){
document.getElementById("downloadButton").disabled    = true;
// タイトル
document.getElementById("showButton")  .disabled      = true;
var title = attrEscape(result[i].title);
document.getElementById('hit')        .innerHTML    = "";
document.getElementById("graphform")  .style.display = "none";
 
// 「検索中」を表示
document.getElementById('searching').style.display = "block";
 
// 検索を行う
var result = lipoqualitySearch(sampleSource, sampleType, lipidClass, dataType);
// var url = 'https://script.google.com/macros/s/AKfycbxW5WpkJH0PUmmLrMtrluvkaKmz0OTTfeBucudy5-LxalQ7vus/exec?classification=' + classification + '&sample=' + sample + '&type=' + type + '&q=search&callback=hasSearched';
// var url = '/lipo/json.txt'
 
// 過去の検索結果を削除する
var root = document.getElementById('result');
root.textContent = '';
for(var i = root.childNodes.length-1; i >= 0; i --)
root.removeChild(root.childNodes[i]);


// 親要素
// 「検索中」を非表示
var parent = document.createElement('div');
document.getElementById('searching').style.display = "none";
parent.id = 'container' + i;
var root = document.getElementById('result');
root.appendChild(parent);


var index = 0;
// var result = jsonp;
var data = [];
//var result = JSON.parse(escape(jsonp));
var yLabels = [];
document.getElementById('hit').innerHTML = 'result. ' + escape(result.length) + ' hit(s).';
gHeatmapData[i] = [];
// チェックボックスを並べるため、最長文字数を調べる
for(var j = 0; j < result[i].map.length; j ++){
var lenmax = 0;
gHeatmapData[i][j] = [];
for(var i = 0; i < result.length; i ++){
for(var k = 0; k < result[i].map[j].data.length; k ++){
if(result[i].title.length > lenmax)
data[index] = [k, j, attrEscape(result[i].map[j].data[k][0])];
lenmax = result[i].title.length;
gHeatmapData[i][j][k] = result[i].map[j].data[k][2];
}
index ++;
lenmax += 6; // "(meta)"分
}
lenmax /= 1.5;
yLabels[j] = attrEscape(result[i].map[j].title);
// チェックボックスの作成
}
for(var i = 0; i < result.length; i ++){
for(var j = 0; j < result[i].x.length; j ++)
var span = document.createElement('span');
result[i].x[j] = attrEscape(result[i].x[j]);
span.style.display = "inline-block";
var xMax = result[i].x.length-1;
span.style.width  = lenmax + "em";
if(xMax > 10)
xMax = 10;
// ヒートマップ
var chart = new Highcharts.Chart({
chart: {
type: 'heatmap',
marginBottom: 0,
plotBorderWidth: 1,
renderTo: parent,
},
scrollbar: {
enabled: true
},
title: {
text: title
},
xAxis: {
categories: result[i].x,
opposite: true,
labels: {
rotation: -90,
style: {
fontSize: '11px',
fontFamily: 'Verdana, sans-serif'
}
},
max: xMax
},
yAxis: {
categories: yLabels,
title: null
},
colorAxis: {
min: 0,
max: 100,
minColor: '#FFFFFF',
maxColor: Highcharts.getOptions().colors[8]
},
legend: {
align: 'right',
layout: 'vertical',
margin: 0,
verticalAlign: 'top',
y: 100,
symbolHeight: 145
},
tooltip: {
formatter: function () {
return this.series.yAxis.categories[this.point.y] + '<br />' +
this.series.xAxis.categories[this.point.x] + '<br />' +
(Math.round(this.point.value*10)/10);
}
},
series: [{
name: 'HEK',
borderWidth: 1,
data: data,
dataLabels: {
enabled: false,
color: '#000000'
},
point: {
events: {
/*mouseOver: function() {
var index = event.target.farthestViewportElement.parentNode.parentElement.id.replace("container", "");
var target = getTarget(this.series.chart.xAxis[0].labelGroup.element.childNodes, result[index].x[this.x]);
if(target != null){
target.css('fill', 'red');
target.css('fontWeight', 'bold');
}


  $(this.series.chart.yAxis[0].labelGroup.element.childNodes[this.y]).css('fill', 'red');
var check = document.createElement('input');
  $(this.series.chart.yAxis[0].labelGroup.element.childNodes[this.y]).css('fontWeight', 'bold');
check.type = 'checkbox';
},
check.id = attrEscape(result[i].title);
mouseOut: function() {
check.value = attrEscape(result[i].title);
var index = event.target.farthestViewportElement.parentNode.parentElement.id.replace("container", "");
check.name  = 'target';
var target = getTarget(this.series.chart.xAxis[0].labelGroup.element.childNodes, result[index].x[this.x]);
check.className = "results";
if(target != null){
check.onchange = function(e){
target.css('fill', '#666666');
checkSelection();
target.css('fontWeight', '');
};
}
span.appendChild(check);
var title = document.createElement('label');
title.setAttribute('for', attrEscape(result[i].title));
title.innerHTML = escape(result[i].title) + ' <a href="' + result[i]["Method link"] + '" target="_blank">(meta)</a>';
span.appendChild(title);


$(this.series.chart.yAxis[0].labelGroup.element.childNodes[this.y]).css('fill', '#666666');
root.appendChild(span);
$(this.series.chart.yAxis[0].labelGroup.element.childNodes[this.y]).css('fontWeight', '');
},*/
click: function(event){
var index = event.target.farthestViewportElement.parentNode.parentElement.id.replace("container","");
getInchiOnHeatmap(index, event.point.x, event.point.y);
}
}
}
}]
});
//chart.setSize(600,300,false);
}
}
// 検索ボタンを有効化
document.getElementById("searchButton").disabled = false;
document.getElementById("graphform").style.display = "block";
}
}
function getTarget(children, target)
// チェックボックスの状態に応じて、グラフ表示ボタンを有効/無効化する /////////////////
// return なし
function checkSelection()
{
{
for(var i = 0; i < children.length; i ++){
var c = document.getElementsByClassName("results");
if(target == children[i].childNodes[0].textContent){
var disabled = true;
return $(children[i]);
for(var i = 0; i < c.length; i ++){
if(c[i].checked){
disabled = false;
break;
}
}
// console.log(children[i].childNodes[0].textContent);
}
}
return null;
document.getElementById("showButton").disabled    = disabled;
document.getElementById("downloadButton").disabled = disabled;
}
// すべてのチェックボックスをチェックする/アンチェックする //////////////////////
// return なし
function checkAllResult()
{
var c = document.getElementsByClassName("results");
 
// チェックするか、アンチェックするかを調べる
var checked = 0;
for(var i = 0; i < c.length; i ++){
if(c[i].checked)
checked ++;
}
var state = true;
if(checked == c.length)
state = false;
 
// チェック状態を変更する
for(var i = 0; i < c.length; i ++)
c[i].checked = state;
 
checkSelection();
}
}

Latest revision as of 02:57, 23 March 2020

// Last-Update: 2020/03/23
// html /////////////////////////////////////////////////////////////////////////////////////////////////////////
// <span id="search"></span><span id="show"></span>
/////////////////////////////////////////////////////////////////////////////////////////////////////////////////
//
/////////////////////////////////////////////////////////////////////////////////////////////////////////////////

// external script //////////////////////////////////////////////////////////////////////////////////////////////
mw.loader.load( ['jquery.ui.sortable'] );
mw.loader.load('https://code.highcharts.com/stock/highstock.js', "text/javascript");
importScript( 'MediaWiki:LipoqualityCommon.js' );
importScript( 'MediaWiki:LipoqualityGet.js'    );
importScript( 'MediaWiki:LipoqualitySearch.js' );
importScript( 'MediaWiki:LipoqualityChart.js'  );

// initialize //////////////////////////////////////////////////////////////////////////////////////////////////
addOnloadHook(lipoqulityInit); 

var gChartType;
var gDataType;

// 初期化 //////////////////////////////////////////////////////////////////////////////////////////////////////
function lipoqulityInit()
{
	// highstock.jsに依存するため、別で読み込む
	var heatmapJS = document.createElement("script");
	heatmapJS.src = "https://code.highcharts.com/modules/heatmap.js";
	document.getElementsByTagName("head")[0].appendChild(heatmapJS);
	var exportingJS = document.createElement("script");
	exportingJS.src = "https://code.highcharts.com/modules/exporting.js";
	document.getElementsByTagName("head")[0].appendChild(exportingJS);

	// 検索、表示、チェックボタンを作成
		// 検索ボタン
	var searchButton = document.createElement("input");
	searchButton.value    = "search";
	searchButton.id       = "searchButton";
	searchButton.type     = "button";
	searchButton.disabled = true;
	searchButton.style.width = "100%";
	searchButton.onclick = function(){
		var sampleSource = document.getElementById("samplesource").value;
		var sampleType   = document.getElementById("sampletype").value;
		var lipidClass   = document.getElementById("lipidclass").value;
		gDataType        = document.getElementById("datatype").value;
		search(sampleSource, sampleType, lipidClass, gDataType);
	};
	document.getElementById("search").appendChild(searchButton);
		// グラフ表示ボタン
	var showButton = document.createElement("input");
	showButton.value = "show graph";
	showButton.id    = "showButton";
	showButton.type  = "button";
	showButton.disabled = true;
	showButton.onclick = function(){barColor = DEFAULT_BAR_COLOR; document.getElementById('drawing').style.display = "block"; window.setTimeout( function(){showChart(getSelectedIDs(), gDataType); document.getElementById('drawing').style.display = "none"; }, 10 );};
	document.getElementById("show").appendChild(showButton);
		// チェックボタン
	var checkButton = document.createElement("input");
	checkButton.value = "all check/uncheck";
	checkButton.id    = "allswitch";
	checkButton.type  = "button";
	checkButton.onclick = function(){checkAllResult()};
	document.getElementById("check").appendChild(checkButton);
		// ダウンロードボタン
	var downloadFileName = "lipodata.txt";
	var downloadLink = document.createElement("a");
	downloadLink.href = "#";
	downloadLink.download = downloadFileName;
	downloadLink.id = "downloadLink";
	downloadLink.onclick = function(){
	    var blob = new Blob([ getDownloadData(getSelectedIDs()) ], { "type" : "text/plain" });

	    if (window.navigator.msSaveBlob) { 
	        window.navigator.msSaveBlob(blob, downloadFileName); 
	        window.navigator.msSaveOrOpenBlob(blob, downloadFileName); 
	    } else {
	        document.getElementById("downloadLink").href = window.URL.createObjectURL(blob);
	    }
	};
	document.getElementById("check").appendChild(downloadLink);
	var downloadButton = document.createElement("input");
	downloadButton.value = "download checked";
	downloadButton.type  = "button";
	downloadButton.style = "margin-left: 1em";
	downloadButton.disabled = true;
	downloadButton.id    = "downloadButton";
	downloadLink.appendChild(downloadButton);


	document.getElementById("graphform").style.display = "none";

	// コンポーネント初期化
	lipoqulityChartInit();

	// コンボボックスの初期化
//	setCombobox('SampleSource');
//	setCombobox('SampleType');
//	setCombobox('LipidClass');
	retrieveSelectionList(setCombobox);

	// 全データの取得
	retrieveAllDataFromText(hasRetrievedAllData);
}
// 全データの取得が完了した後の処理 /////////////////////////////////////
// return なし
function hasRetrievedAllData()
{
	// GETメソッドによる検索を行う場合の処理 /////////////////////////////
	var query  = window.location.search.substring(1);
	var params = query.split('&');
	var sampleSource = "All";
	var sampleType   = "All";
	var lipidClass   = "";
	var chain        = "";
	var chart        = "";
	var species      = "";
	var sampleName   = "";
	// パラメータの取得
	// ss = SampleSource - デフォルトはAll
	// st = SampleType - デフォルトはAll
	// lc = LipidClass - デフォルトは空文字。この文字列が入っていないと、検索は行わない
	// chain = Lipid chain - chainグラフの表示には必須項目。16:0/16:0/16:0のようにスラッシュ区切り
	for(var i = 0; i < params.length; i++){
		var w = params[i].split('=');
		var name  = decodeURIComponent(w[0]);
		var value = decodeURIComponent(w[1]);
		if(name == "ss"){ // sample source
			sampleSource = value;

		} else if(name == "st"){ // sample type
			sampleType = value;

		} else if(name == "lc"){ // lipid class
			lipidClass = value;

		} else if(name == "ct"){ // chart type
			chart = value;

		} else if(name == "sp"){ // species
			species = value;

		} else if(name == "sn"){ // sample name
			sampleName = value;

		} else if(name == "dt"){
			gDataType = value;
		}
	}
// speciesが指定された場合、対象データ以外を削除する ///////////
	if(species.length > 0){
		var spReg = new RegExp(translateForReg(species), "i");
		for(key in gAllData){
			if(!spReg.test(key)){ // speciesが合致するか
				delete gAllData[key];
			}
		}
	}
////////////////////////////////////////////////////////////////
	var index = lipidClass.indexOf(" ");
	if(index > 0){
		chain = lipidClass.substring(index+1);
		lipidClass = lipidClass.substring(0, index);
	} else {
		index = lipidClass.indexOf("(");
		if(index >= 0){
			chain = lipidClass.substring(index+1, lipidClass.length-1);
			lipidClass = lipidClass.substring(0, index);
		}
	}
	chain = chain.replace(/^\(/g,"");
	chain = chain.replace(/[_]/g,"/");
	if(lipidClass.indexOf("Cer-") < 0){
//		chain = chain.replace(/\)$/g,"");
		chain = chain.replace(/[)(]/g,"/");
	}
	chain = chain.replace(/\/\//g,"/");
	if(chart == "c" && chain.length > 0){
		// lipidclass基準の棒グラフを表示
		selectCombobox([sampleSource, sampleType, lipidClass, gDataType]);
		var result = retrieveChainData(sampleName, sampleSource, sampleType, lipidClass, chain, gDataType); // speciesからsamplenameに変更
		if(result.x.length > 0){
			showChainChart(result);
		}

	} else if(chart == "b" && lipidClass.length > 0){
		// bar(棒グラフ)を表示
		selectCombobox([sampleSource, sampleType, lipidClass, gDataType]);
		search(sampleSource, sampleType, lipidClass, gDataType);
		if(document.getElementsByClassName("results").length > 0){
			document.getElementById('allswitch').click();
			document.getElementById('bar').checked = true;
			showChart(getSelectedIDs(), gDataType);
		}
	}

	document.getElementById('loading').style.display = "none";
	// 検索ボタンは有効化しておく
	document.getElementById("searchButton").disabled = false;
}
function getSelectedIDs()
{
	var targets = [];
	var boxes = document.getElementsByName('target');
	for(var i = 0; i < boxes.length; i ++){
		if(boxes[i].checked)
			targets.push(boxes[i].value);
	}
	if(targets.length == 0){
		alert("選択してください");
		return [];
	}
	return targets;
}
// 検索ボックスの初期化 ///////////////////////////////////////////////////////////////////////////////////////////////////////////////
// param name カテゴリ名
// return なし
function setCombobox(name)
{
	var url = '/mediawiki/api.php?action=query&prop=revisions&redirects=1&titles=Lipoquality:' + name + '&rvprop=content&format=xml'

	var xmlHttpRequest = new XMLHttpRequest();
	xmlHttpRequest.onreadystatechange = function()
	{
		var READYSTATE_COMPLETED = 4;
		if(this.readyState == READYSTATE_COMPLETED){
			var HTTP_STATUS_OK = 200;
			if(this.status == HTTP_STATUS_OK) {
				// success
				var parser = new DOMParser();
				var dom = parser.parseFromString(this.response.trim(), "text/xml");
				var text = dom.getElementsByTagName("rev");
				var lines = text[0].textContent.split("\n");
				var select = document.getElementById(name.toLowerCase());
				if(name != 'LipidClass')
					lines.unshift('All');
				for(var i = 0; i < lines.length; i ++){
					var opt = document.createElement('option');
					opt.value = opt.textContent = lines[i].replace(/^\*/, '').replace(/^ */, '').replace(/ *$/, '').replace(/"/g, "&quot;").replace(/'/g, "&rsquo");;
					select.appendChild(opt);
				}
			} else {
				// error
				console.log('search failed. ' + this.status + ':' + this.statusText + "/" + this.readyState);
			}
		}
	}

	// AJAXを使って、コンボボックスの選択項目を取得する
	xmlHttpRequest.open('GET', url, true);
	xmlHttpRequest.responseType = 'text';
	xmlHttpRequest.send(null);
}
var globalList = null;
function setCombobox()
{
	document.getElementById("samplesource").onchange  = function(){ setNames() };
	document.getElementById("sampletype").onchange    = function(){ setLipidcategories() };
	document.getElementById("lipidcategory").onchange = function(){ setLipidclassess() };

	var keys = Object.keys(gListData);
	appendOption("samplesource", "All");
	for(var i = 0; i < keys.length; i ++){
		appendOption("samplesource", keys[i]);
	}

	setNames();
}

function appendOption(id, value)
{
	var parent = document.getElementById(id);
	var op = document.createElement("option");
	op.valuie = value;
	op.textContent = value;
	parent.appendChild(op);
}
function removeAll(id)
{
	parent = document.getElementById(id);
	while(parent.lastChild){
		parent.removeChild(parent.lastChild);
	}
}
function getRegExp(id)
{
	var item = document.getElementById(id).value;
	var regexp;
	if(item == "All"){
		regexp = new RegExp('.*');
	} else {
		regexp = new RegExp("^" + item.replace("(","\\(").replace(")","\\)") + "$");
	}
	return regexp;
}
function setNames()
{
	removeAll("sampletype");
	globalList = [];
	getSelectionList([getRegExp("samplesource"), null, null], gListData, 0, 0);
	globalList.sort();
	appendOption("sampletype", "All");
	for(var i = 0; i < globalList.length; i ++){
		appendOption("sampletype", globalList[i]);
	}

	setLipidcategories();
}
function setLipidcategories()
{
	removeAll("lipidcategory");
	globalList = [];
	getSelectionList([getRegExp("samplesource"), getRegExp("sampletype"), null], gListData, 1, 0);
	globalList.sort();
	appendOption("lipidcategory", "All");
	for(var i = 0; i < globalList.length; i ++){
		appendOption("lipidcategory", globalList[i]);
	}

	setLipidclassess();
}
function setLipidclassess()
{
	removeAll("lipidclass");
	globalList = [];
	getSelectionList([getRegExp("samplesource"), getRegExp("sampletype"), getRegExp("lipidcategory")], gListData, 2, 0);
	globalList.sort();
	for(var i = 0; i < globalList.length; i ++){
		appendOption("lipidclass", globalList[i]);
	}
}
function getSelectionList(patterns, obj, depth, level)
{
	if(level == 2){
		// last
		var targets = Object.keys(obj);
		for(var i = 0; i < targets.length; i ++){
			if(patterns[level].test(targets[i])){
				for(var j = 0; j < obj[targets[i]].length; j ++){
					if(globalList.indexOf(obj[targets[i]][j]) == -1)
						globalList.push(obj[targets[i]][j]);
				}
			}
		}
	} else {
		// sub
		var keys = Object.keys(obj);
		for(var i = 0; i < keys.length; i ++){
			if(patterns[level].test(keys[i])){
				if(level == depth){
					var targets = Object.keys(obj[keys[i]][0]);
					for(var j = 0; j < targets.length; j ++){
						if(globalList.indexOf(targets[j]) == -1)
							globalList.push(targets[j]);
					}
				} else {
					getSelectionList(patterns, obj[keys[i]][0], depth, level+1);
				}
			}
		}
	}
}

// 指定されたコンボボックスの値をセットする /////////////////////////////////////
// param targets - 選択するSampleSource, SampleType, LipidClassの項目値
// return なし
function selectCombobox(targets)
{
	var ids = ["samplesource", "sampletype", "lipidclass", "datatype"];

	// 一つでもコンボボックスの初期化が終わっていなければ、処理を後回しにする
	var counter = 1;
	for(var i = 0; i < ids.length; i ++)
		counter *= document.getElementById(ids[i]).options.length;
	if(counter == 0){
		window.setTimeout( function() { selectCombobox(targets) }, 50 );
		return;
	}

	// コンボボックスの値をセットする
	for(var i = 0; i < ids.length; i ++){
		var cb = document.getElementById(ids[i]);
		for(var j = 0; j < cb.options.length; j ++){
			if(cb.options[j].value == targets[i]){
				cb.selectedIndex = j;
				break;
			}
		}
	}
}
// 検索 ///////////////////////////////////////////////////////////////////////////////////////////////////////////////
// param sampleSource - 検索対象のSampleSource
// param sampleType   - 検索対象のSampleType
// param lipidClass   - 検索対象のLipidClass
// return なし
function search(sampleSource, sampleType, lipidClass, dataType)
{
	// 検索ボタン等を無効化しておく
	document.getElementById("searchButton").disabled      = true;
	document.getElementById("downloadButton").disabled    = true;
	document.getElementById("showButton")  .disabled      = true;
	document.getElementById('hit')         .innerHTML     = "";
	document.getElementById("graphform")   .style.display = "none";

	// 「検索中」を表示
	document.getElementById('searching').style.display = "block";

	// 検索を行う
	var result = lipoqualitySearch(sampleSource, sampleType, lipidClass, dataType);
//	var url = 'https://script.google.com/macros/s/AKfycbxW5WpkJH0PUmmLrMtrluvkaKmz0OTTfeBucudy5-LxalQ7vus/exec?classification=' + classification + '&sample=' + sample + '&type=' + type + '&q=search&callback=hasSearched';
//	var url = '/lipo/json.txt'

	// 過去の検索結果を削除する
	var root = document.getElementById('result');
	root.textContent = '';
	for(var i = root.childNodes.length-1; i >= 0; i --)
		root.removeChild(root.childNodes[i]);

	// 「検索中」を非表示
	document.getElementById('searching').style.display = "none";
	var root = document.getElementById('result');

//	var result = jsonp;
	//var result = JSON.parse(escape(jsonp));
	document.getElementById('hit').innerHTML = 'result. ' + escape(result.length) + ' hit(s).';
	// チェックボックスを並べるため、最長文字数を調べる
	var lenmax = 0;
	for(var i = 0; i < result.length; i ++){
		if(result[i].title.length > lenmax)
			lenmax = result[i].title.length;
	}
	lenmax += 6; // "(meta)"分
	lenmax /= 1.5;
	// チェックボックスの作成
	for(var i = 0; i < result.length; i ++){
		var span = document.createElement('span');
		span.style.display = "inline-block";
		span.style.width   = lenmax + "em";

		var check = document.createElement('input');
		check.type = 'checkbox';
		check.id	= attrEscape(result[i].title);
		check.value = attrEscape(result[i].title);
		check.name  = 'target';
		check.className = "results";
		check.onchange = function(e){
			checkSelection();
		};
		span.appendChild(check);
		var title = document.createElement('label');
		title.setAttribute('for', attrEscape(result[i].title));
		title.innerHTML = escape(result[i].title) + ' <a href="' + result[i]["Method link"] + '" target="_blank">(meta)</a>';
		span.appendChild(title);

		root.appendChild(span);
	}
	// 検索ボタンを有効化
	document.getElementById("searchButton").disabled = false;

	document.getElementById("graphform").style.display = "block";
}
// チェックボックスの状態に応じて、グラフ表示ボタンを有効/無効化する /////////////////
// return なし
function checkSelection()
{
	var c = document.getElementsByClassName("results");
	var disabled = true;
	for(var i = 0; i < c.length; i ++){
		if(c[i].checked){
			disabled = false;
			break;
		}
	}
	document.getElementById("showButton").disabled     = disabled;
	document.getElementById("downloadButton").disabled = disabled;
}
// すべてのチェックボックスをチェックする/アンチェックする //////////////////////
// return なし
function checkAllResult()
{
	var c = document.getElementsByClassName("results");

	// チェックするか、アンチェックするかを調べる
	var checked = 0;
	for(var i = 0; i < c.length; i ++){
		if(c[i].checked)
			checked ++;
	}
	var state = true;
	if(checked == c.length)
		state = false;

	// チェック状態を変更する
	for(var i = 0; i < c.length; i ++)
		c[i].checked = state;

	checkSelection();
}