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Made online output tools available for async-watched exports
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,84 +1,147 @@ | ||
| <%-- | ||
| * GIGWA - Genotype Investigator for Genome Wide Analyses | ||
| * Copyright (C) 2016 - 2019, <CIRAD> <IRD> | ||
| * | ||
| * This program is free software: you can redistribute it and/or modify it under | ||
| * the terms of the GNU Affero General Public License, version 3 as published by | ||
| * the Free Software Foundation. | ||
| * | ||
| * This program is distributed in the hope that it will be useful, but WITHOUT | ||
| * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS | ||
| * FOR A PARTICULAR PURPOSE. See the GNU Affero General Public License for more | ||
| * details. | ||
| * | ||
| * See <http://www.gnu.org/licenses/agpl.html> for details about GNU General | ||
| * Public License V3. | ||
| --%> | ||
| <%@ page language="java" contentType="text/html; charset=utf-8" pageEncoding="UTF-8" import="fr.cirad.web.controller.gigwa.GigwaRestController"%> | ||
| <%@ taglib prefix="c" uri="http://java.sun.com/jsp/jstl/core" %> | ||
|
|
||
| <html> | ||
|
|
||
| <head> | ||
| <script type="text/javascript" src="js/jquery-1.12.4.min.js"></script> | ||
| <script type="text/javascript" src="js/bootstrap.min.js"></script> | ||
| <script type="text/javascript" src="<c:url value="/js/common.js" />"></script> | ||
| <link rel="shortcut icon" href="images/favicon.png" type="image/x-icon" /> | ||
| <link type="text/css" rel="stylesheet" href="css/bootstrap.min.css"> | ||
| <link type="text/css" rel="stylesheet" href="css/main.css"> | ||
| <script type="text/javascript"> | ||
| var progressUrl = "<c:url value='<%=GigwaRestController.REST_PATH + GigwaRestController.BASE_URL + GigwaRestController.PROGRESS_PATH%>' />"; | ||
| var abortUrl = "<c:url value='<%=GigwaRestController.REST_PATH + GigwaRestController.BASE_URL + GigwaRestController.ABORT_PROCESS_PATH%>' />"; | ||
| var destinationLink = "${param.successURL}"; | ||
| var fileName = destinationLink.substring(destinationLink.lastIndexOf("/") + 1); | ||
| if (fileName.startsWith("?")) | ||
| fileName = location.origin + '<c:url value='/' />' + fileName; | ||
| var processAborted = false; | ||
| function watchProgress() | ||
| { | ||
| $.ajax({ | ||
| url: progressUrl<c:if test="${param.process != null}">+'?progressToken=${param.process}'</c:if>, | ||
| type: "GET", | ||
| async: false, | ||
| <c:if test="${param.token != null}">headers: { "Authorization": "Bearer ${param.token}" },</c:if> | ||
| success: function (jsonResult) { | ||
| if (jsonResult == null) | ||
| $('body').append('<center><p style="margin-top:60px;" class="bold">No such process is running at the moment.</p><p>Refresh to try again or use the link below to access resulting data in case the process has already finished:<br/><br/><a style="cursor:pointer;" href="' + destinationLink + '">' + (fileName == '?' ? destinationLink : fileName) + '</a></p></center>'); | ||
| else | ||
| { | ||
| $('#progress').modal({backdrop: 'static', keyboard: false, show: true}); | ||
| $('.modal-backdrop.in').css('opacity', '0.1'); | ||
| displayProcessProgress(5, <c:choose><c:when test="${param.token != null}">'${param.token}'</c:when><c:otherwise>null</c:otherwise></c:choose>, '${param.process}'); | ||
| $('#progress').on('hidden.bs.modal', function () { | ||
| if (processAborted) | ||
| $('body').append('<center><p style="margin-top:60px;" class="bold">Process aborted</p></center>'); | ||
| else if (!$('#progress').data('error')) | ||
| $('body').append('<center><p style="margin-top:60px;" class="bold">Process has completed. Data is now <a style="cursor:pointer;" href="' + destinationLink + '">available here</a></center>'); | ||
| }); | ||
| } | ||
| }, | ||
| error: function (xhr, ajaxOptions, thrownError) { | ||
| handleError(xhr, thrownError); | ||
| } | ||
| }); | ||
| $("div.modal-backdrop").remove(); | ||
| } | ||
| </script> | ||
| <title>Gigwa process watcher</title> | ||
| </head> | ||
|
|
||
| <body style='background-color:#f0f0f0;' onload="$('button#abortButton').css('display', ${param.abortable eq 'true'} ? 'inline' : 'none'); watchProgress();"> | ||
| <div style='background-color:white; width:100%; padding:5px;'><img src="<c:url value='/images/logo.png' />" height="25"></div> | ||
| <div id='progress' style='margin-top:50px; margin-left:20%; width:60%; display:block; text-align:center; display:none;'> | ||
| <p>This process is running as a background task.</p> | ||
| <p>You may leave the main Gigwa page and either keep this one open or copy its URL to check again later.</p> | ||
| <h2 id="progressText" class="loading-message" style='margin-top:50px'>Please wait...</h2> | ||
| <button class="btn btn-danger btn-sm" id="abortButton" style="display:none;" type="button" name="abort" onclick="if (confirm('Are you sure?')) abort('${param.process}');">Abort</button> | ||
| </div> | ||
| </body> | ||
|
|
||
| <%-- | ||
| * GIGWA - Genotype Investigator for Genome Wide Analyses | ||
| * Copyright (C) 2016 - 2019, <CIRAD> <IRD> | ||
| * | ||
| * This program is free software: you can redistribute it and/or modify it under | ||
| * the terms of the GNU Affero General Public License, version 3 as published by | ||
| * the Free Software Foundation. | ||
| * | ||
| * This program is distributed in the hope that it will be useful, but WITHOUT | ||
| * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS | ||
| * FOR A PARTICULAR PURPOSE. See the GNU Affero General Public License for more | ||
| * details. | ||
| * | ||
| * See <http://www.gnu.org/licenses/agpl.html> for details about GNU General | ||
| * Public License V3. | ||
| --%> | ||
| <%@ page language="java" contentType="text/html; charset=utf-8" pageEncoding="UTF-8" import="fr.cirad.web.controller.gigwa.GigwaRestController"%> | ||
| <%@ taglib prefix="c" uri="http://java.sun.com/jsp/jstl/core" %> | ||
| <%@ taglib prefix="fn" uri="http://java.sun.com/jsp/jstl/functions"%> | ||
| <jsp:useBean id="appConfig" class="fr.cirad.tools.AppConfig" /> | ||
|
|
||
| <html> | ||
|
|
||
| <head> | ||
| <script type="text/javascript" src="js/jquery-1.12.4.min.js"></script> | ||
| <script type="text/javascript" src="js/bootstrap.min.js"></script> | ||
| <script type="text/javascript" src="<c:url value="/js/common.js" />"></script> | ||
| <link rel="shortcut icon" href="images/favicon.png" type="image/x-icon" /> | ||
| <link type="text/css" rel="stylesheet" href="css/bootstrap.min.css"> | ||
| <link type="text/css" rel="stylesheet" href="css/main.css"> | ||
| <script type="text/javascript"> | ||
| var progressUrl = "<c:url value='<%=GigwaRestController.REST_PATH + GigwaRestController.BASE_URL + GigwaRestController.PROGRESS_PATH%>' />"; | ||
| var abortUrl = "<c:url value='<%=GigwaRestController.REST_PATH + GigwaRestController.BASE_URL + GigwaRestController.ABORT_PROCESS_PATH%>' />"; | ||
| var downloadURL = "${param.successURL}"; | ||
| var fileName = downloadURL.substring(downloadURL.lastIndexOf("/") + 1); | ||
| if (fileName.startsWith("?")) | ||
| fileName = location.origin + '<c:url value='/' />' + fileName; | ||
| var processAborted = false; | ||
| <c:if test="${param.exportFormat != null}"> | ||
| var galaxyPushURL = '<c:url value="<%=GigwaRestController.REST_PATH + GigwaRestController.BASE_URL + GigwaRestController.GALAXY_HISTORY_PUSH%>" />'; | ||
| var onlineOutputTools = null; | ||
| var igvDataLoadPort, igvGenomeListUrl; | ||
| <c:set var="igvDataLoadPort" value="<%= appConfig.get(\"igvDataLoadPort\") %>"></c:set> | ||
| <c:set var="igvGenomeListUrl" value="<%= appConfig.get(\"igvGenomeListUrl\") %>"></c:set> | ||
| <c:if test='${!fn:startsWith(igvDataLoadPort, "??") && !empty igvDataLoadPort && !fn:startsWith(igvGenomeListUrl, "??") && !empty igvGenomeListUrl}'> | ||
| igvDataLoadPort = ${igvDataLoadPort}; | ||
| igvGenomeListUrl = '<c:url value="<%=GigwaRestController.REST_PATH + GigwaRestController.BASE_URL + GigwaRestController.IGV_GENOME_LIST_URL %>" />'; | ||
| </c:if> | ||
| $.ajax({ | ||
| url: '<c:url value="<%=GigwaRestController.REST_PATH + GigwaRestController.BASE_URL + GigwaRestController.ONLINE_OUTPUT_TOOLS_URL%>" />', | ||
| async: true, | ||
| type: "GET", | ||
| contentType: "application/json;charset=utf-8", | ||
| success: function(labelsAndURLs) { | ||
| onlineOutputTools = labelsAndURLs; | ||
| onlineOutputTools["Custom tool"] = {"url" : "", "formats" : ""}; | ||
| }, | ||
| error: function(xhr, thrownError) { | ||
| handleError(xhr, thrownError); | ||
| } | ||
| }); | ||
| </c:if> | ||
| function watchProgress() | ||
| { | ||
| $.ajax({ | ||
| url: progressUrl<c:if test="${param.process != null}">+'?progressToken=${param.process}'</c:if>, | ||
| type: "GET", | ||
| async: false, | ||
| <c:if test="${param.token != null}">headers: { "Authorization": "Bearer ${param.token}" },</c:if> | ||
| success: function (jsonResult) { | ||
| if (jsonResult == null) { | ||
| $('body').append('<center id="defaultMsg"><p style="margin-top:60px;" class="bold">No such process is running at the moment.</p><p>Refresh to try again or use the link below to access resulting data in case the process has already finished:<br/><br/><a style="cursor:pointer;" href="' + downloadURL + '">' + (fileName == '?' ? downloadURL : fileName) + '</a></p></center>'); | ||
| <c:if test="${param.exportFormat != null}"> | ||
| $.ajax({ | ||
| type: 'HEAD', | ||
| url: downloadURL, | ||
| success: function(data, textStatus, jqXHR) { | ||
| if (jqXHR.status >= 200 && jqXHR.status < 300) { | ||
| successFunction(); | ||
| $("#defaultMsg").remove(); | ||
| } | ||
| } | ||
| }); | ||
| </c:if> | ||
| } | ||
| else | ||
| { | ||
| $('#progress').modal({backdrop: 'static', keyboard: false, show: true}); | ||
| $('.modal-backdrop.in').css('opacity', '0.1'); | ||
| displayProcessProgress(5, <c:choose><c:when test="${param.token != null}">'${param.token}'</c:when><c:otherwise>null</c:otherwise></c:choose>, '${param.process}'<c:if test="${param.exportFormat != null}">, successFunction</c:if>); | ||
| $('#progress').on('hidden.bs.modal', function () { | ||
| if (processAborted) | ||
| $('body').append('<center><p style="margin-top:60px;" class="bold">Process aborted</p></center>'); | ||
| <c:if test="${param.exportFormat == null}"> | ||
| else if (!$('#progress').data('error')) | ||
| $('body').append('<center><p style="margin-top:60px;" class="bold">Process has completed. Data is now <a style="cursor:pointer;" href="' + downloadURL + '">available here</a></center>'); | ||
| </c:if> | ||
| $('#progress').off('hidden.bs.modal'); | ||
| }); | ||
| } | ||
| }, | ||
| error: function (xhr, ajaxOptions, thrownError) { | ||
| handleError(xhr, thrownError); | ||
| } | ||
| }); | ||
| $("div.modal-backdrop").remove(); | ||
| } | ||
| <c:if test="${param.exportFormat != null}"> | ||
| function successFunction() { | ||
| let fileExtensions = "${param.exportFormatExtensions}".split(";"); | ||
| <c:if test="${param.exportedTsvMetadata eq true}"> | ||
| fileExtensions.push("tsv"); | ||
| </c:if> | ||
| showServerExportBox(fileExtensions); | ||
| } | ||
| </c:if> | ||
| </script> | ||
| <title>Gigwa process watcher</title> | ||
| </head> | ||
| <body style='background-color:#f0f0f0;' onload="$('button#abort').css('display', ${param.abortable eq 'true'} ? 'inline' : 'none'); watchProgress();"> | ||
| <c:if test="${param.exportFormat != null}"> | ||
| <input type="hidden" id="exportFormat" value="${param.exportFormat}" /> | ||
| <input type="hidden" id="module" value="${param.module}" /> | ||
| <input type="hidden" id="galaxyInstanceURL" value="${param.galaxyInstanceUrl}" /> | ||
| <input type="hidden" id="exportedIndividualCount" value="${param.exportedIndividualCount}" /> | ||
| <input type="hidden" id="count" value="${param.exportedVariantCount}" /> | ||
| </c:if> | ||
| <div style='background-color:white; width:100%; padding:5px;'><img src="<c:url value='/images/logo.png' />" height="25"></div> | ||
| <div id='progress' style='margin-top:50px; margin-left:20%; width:60%; display:block; text-align:center; display:none;'> | ||
| <p>This process is running as a background task.</p> | ||
| <p>You may leave the main Gigwa page and either keep this one open or copy its URL to check again later.</p> | ||
| <h2 id="progressText" class="loading-message" style='margin-top:100px'>Please wait...</h2> | ||
| <button class="btn btn-danger btn-sm" id="abort" style="display:none;" type="button" name="abort" onclick="if (confirm('Are you sure?')) abort('${param.process}');">Abort</button> | ||
| </div> | ||
| <div id="serverExportBox" class="panel" style="position:absolute; margin:0; top:50px; left:calc(50% - 250px); width:400px;"></div> | ||
| </body> | ||
| </html> |
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