From c2316e2d38a83e5573b62192027f9ceb68fd0bb9 Mon Sep 17 00:00:00 2001
From: Adam Rauch <adam@labkey.com>
Date: Fri, 17 Nov 2023 13:06:03 -0800
Subject: [PATCH] add nonce="<%=getScriptNonce()%>" (#788)

does not fixup in line events

Co-authored-by: Matthew Bellew <matthewb@labkey.com>
---
 src/org/labkey/targetedms/search/modificationSearch.jsp         | 2 +-
 src/org/labkey/targetedms/view/calibrationCurve.jsp             | 2 +-
 src/org/labkey/targetedms/view/chromatogramsForm.jsp            | 2 +-
 src/org/labkey/targetedms/view/confirmImport.jsp                | 2 +-
 src/org/labkey/targetedms/view/figuresOfMerit.jsp               | 2 +-
 src/org/labkey/targetedms/view/instrumentCalendar.jsp           | 2 +-
 src/org/labkey/targetedms/view/paretoPlot.jsp                   | 2 +-
 src/org/labkey/targetedms/view/passport/MxNReport.jsp           | 2 +-
 src/org/labkey/targetedms/view/passport/beforeAfterReport.jsp   | 2 +-
 src/org/labkey/targetedms/view/pharmacokinetics.jsp             | 2 +-
 .../labkey/targetedms/view/precursorConflictResolutionView.jsp  | 2 +-
 .../labkey/targetedms/view/proteinConflictResolutionView.jsp    | 2 +-
 src/org/labkey/targetedms/view/qcSummary.jsp                    | 2 +-
 src/org/labkey/targetedms/view/qcTrendPlotReport.jsp            | 2 +-
 src/org/labkey/targetedms/view/runMethodChain.jsp               | 2 +-
 src/org/labkey/targetedms/view/spectrum/spectrumView.jsp        | 2 +-
 src/org/labkey/targetedms/view/summaryChartsView.jsp            | 2 +-
 17 files changed, 17 insertions(+), 17 deletions(-)

diff --git a/src/org/labkey/targetedms/search/modificationSearch.jsp b/src/org/labkey/targetedms/search/modificationSearch.jsp
index 22288fbf4..cd6a38940 100644
--- a/src/org/labkey/targetedms/search/modificationSearch.jsp
+++ b/src/org/labkey/targetedms/search/modificationSearch.jsp
@@ -48,7 +48,7 @@
 %>
 <div id=<%=q(renderId)%>></div>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
 
     Ext4.onReady(function(){
 
diff --git a/src/org/labkey/targetedms/view/calibrationCurve.jsp b/src/org/labkey/targetedms/view/calibrationCurve.jsp
index d691a4815..aad8df1ba 100644
--- a/src/org/labkey/targetedms/view/calibrationCurve.jsp
+++ b/src/org/labkey/targetedms/view/calibrationCurve.jsp
@@ -42,7 +42,7 @@
 <%
     String elementId = "targetedmsCalibrationCurve";
 %>
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
 
     var calibrationCurvePlot;
 
diff --git a/src/org/labkey/targetedms/view/chromatogramsForm.jsp b/src/org/labkey/targetedms/view/chromatogramsForm.jsp
index 39b92b062..295ee3e9c 100644
--- a/src/org/labkey/targetedms/view/chromatogramsForm.jsp
+++ b/src/org/labkey/targetedms/view/chromatogramsForm.jsp
@@ -91,7 +91,7 @@
         font-size:10px;
     }
 </style>
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
 
 +function($){
 
diff --git a/src/org/labkey/targetedms/view/confirmImport.jsp b/src/org/labkey/targetedms/view/confirmImport.jsp
index b7a690925..67cdae904 100644
--- a/src/org/labkey/targetedms/view/confirmImport.jsp
+++ b/src/org/labkey/targetedms/view/confirmImport.jsp
@@ -24,7 +24,7 @@
     TargetedMSController.SkylinePipelinePathForm form = (TargetedMSController.SkylinePipelinePathForm)HttpView.currentModel();
     ActionURL targetURL = new ActionURL(TargetedMSController.SkylineDocUploadAction.class, getContainer());
 %>
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     Ext.onReady(function() {
 
         Ext.select('.repr_cb').on('click', function(event, target) {
diff --git a/src/org/labkey/targetedms/view/figuresOfMerit.jsp b/src/org/labkey/targetedms/view/figuresOfMerit.jsp
index db9eec445..c32fd6440 100644
--- a/src/org/labkey/targetedms/view/figuresOfMerit.jsp
+++ b/src/org/labkey/targetedms/view/figuresOfMerit.jsp
@@ -135,7 +135,7 @@
     </div>
 </div>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
 
     +function($) {
         this.$ = $;
diff --git a/src/org/labkey/targetedms/view/instrumentCalendar.jsp b/src/org/labkey/targetedms/view/instrumentCalendar.jsp
index c3a1ce536..d7987cd30 100644
--- a/src/org/labkey/targetedms/view/instrumentCalendar.jsp
+++ b/src/org/labkey/targetedms/view/instrumentCalendar.jsp
@@ -26,7 +26,7 @@
     }
 %>
 
-<script>
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
 (function() {
     let calendar = null;
     let heatMapSource = 'sampleCount';
diff --git a/src/org/labkey/targetedms/view/paretoPlot.jsp b/src/org/labkey/targetedms/view/paretoPlot.jsp
index 8e356a532..69017920a 100644
--- a/src/org/labkey/targetedms/view/paretoPlot.jsp
+++ b/src/org/labkey/targetedms/view/paretoPlot.jsp
@@ -41,7 +41,7 @@
 
 <div id=<%=q(tiledPlotPanelId)%> class="tiledPlotPanel"></div>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
 
         function init() {
             var tiledPlotPanelId = <%=q(tiledPlotPanelId)%>;
diff --git a/src/org/labkey/targetedms/view/passport/MxNReport.jsp b/src/org/labkey/targetedms/view/passport/MxNReport.jsp
index 9ccacde4f..aed0e7a04 100644
--- a/src/org/labkey/targetedms/view/passport/MxNReport.jsp
+++ b/src/org/labkey/targetedms/view/passport/MxNReport.jsp
@@ -33,7 +33,7 @@
 %>
     <!--START IMPORTS-->
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     var proteinJSON = <%=json(protein.getJSON(false), 2)%>
     document.addEventListener("DOMContentLoaded", function() {
         LABKEY.Query.selectRows({
diff --git a/src/org/labkey/targetedms/view/passport/beforeAfterReport.jsp b/src/org/labkey/targetedms/view/passport/beforeAfterReport.jsp
index 72d7446d8..a90022847 100644
--- a/src/org/labkey/targetedms/view/passport/beforeAfterReport.jsp
+++ b/src/org/labkey/targetedms/view/passport/beforeAfterReport.jsp
@@ -47,7 +47,7 @@
     %>
     <!--START IMPORTS-->
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     var proteinJSON = <%=json(protein.getJSON(true), 2)%>
     document.addEventListener("DOMContentLoaded", function() {
         protein.initialize();
diff --git a/src/org/labkey/targetedms/view/pharmacokinetics.jsp b/src/org/labkey/targetedms/view/pharmacokinetics.jsp
index 5666c3fc0..c9d636426 100644
--- a/src/org/labkey/targetedms/view/pharmacokinetics.jsp
+++ b/src/org/labkey/targetedms/view/pharmacokinetics.jsp
@@ -101,7 +101,7 @@
     </labkey:panel>
     <%}%>
 </div>
-<script type="application/javascript">
+    <script type="text/javascript" nonce="<%=getScriptNonce()%>">
     +function ($) {
 
         var moleculeId = <%=molecule.getId()%>;
diff --git a/src/org/labkey/targetedms/view/precursorConflictResolutionView.jsp b/src/org/labkey/targetedms/view/precursorConflictResolutionView.jsp
index bd11fe32d..6354b4a24 100644
--- a/src/org/labkey/targetedms/view/precursorConflictResolutionView.jsp
+++ b/src/org/labkey/targetedms/view/precursorConflictResolutionView.jsp
@@ -58,7 +58,7 @@
     div.protein_details {padding:3px;}
 </style>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     var $ = jQuery.noConflict();
     var table;
 
diff --git a/src/org/labkey/targetedms/view/proteinConflictResolutionView.jsp b/src/org/labkey/targetedms/view/proteinConflictResolutionView.jsp
index ca65e540f..1f1c890ac 100644
--- a/src/org/labkey/targetedms/view/proteinConflictResolutionView.jsp
+++ b/src/org/labkey/targetedms/view/proteinConflictResolutionView.jsp
@@ -58,7 +58,7 @@
     div.protein_details {padding:3px;}
 </style>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     var $ = jQuery.noConflict();
     var table;
 
diff --git a/src/org/labkey/targetedms/view/qcSummary.jsp b/src/org/labkey/targetedms/view/qcSummary.jsp
index 051a0498f..5a7544dc9 100644
--- a/src/org/labkey/targetedms/view/qcSummary.jsp
+++ b/src/org/labkey/targetedms/view/qcSummary.jsp
@@ -39,7 +39,7 @@
 
 <div style="min-height: 160px;" id=<%=q(qcSummaryId)%> ></div>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     Ext4.onReady(function()
     {
         Ext4.create('LABKEY.targetedms.QCSummary', {
diff --git a/src/org/labkey/targetedms/view/qcTrendPlotReport.jsp b/src/org/labkey/targetedms/view/qcTrendPlotReport.jsp
index e8beb57f6..bf2848b30 100644
--- a/src/org/labkey/targetedms/view/qcTrendPlotReport.jsp
+++ b/src/org/labkey/targetedms/view/qcTrendPlotReport.jsp
@@ -59,7 +59,7 @@
 <div id=<%=q(plotPaginationPanelId)%> class="plotPaginationHeaderPanel"></div>
 <div id=<%=q(plotPanelId)%> class="tiledPlotPanel"></div>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
         function init() {
             var reportPanelId = <%=q(reportPanelId)%>;
             var plotPanelId = <%=q(plotPanelId)%>;
diff --git a/src/org/labkey/targetedms/view/runMethodChain.jsp b/src/org/labkey/targetedms/view/runMethodChain.jsp
index c3507ac58..a2ad964ff 100644
--- a/src/org/labkey/targetedms/view/runMethodChain.jsp
+++ b/src/org/labkey/targetedms/view/runMethodChain.jsp
@@ -37,7 +37,7 @@
 
 <div id="runMethodChainDetails">Loading...</div>
 
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     Ext4.onReady(function() {
         Ext4.create('LABKEY.targetedms.LinkedVersions', {
             divId: 'runMethodChainDetails',
diff --git a/src/org/labkey/targetedms/view/spectrum/spectrumView.jsp b/src/org/labkey/targetedms/view/spectrum/spectrumView.jsp
index 0a25fc796..21db69720 100644
--- a/src/org/labkey/targetedms/view/spectrum/spectrumView.jsp
+++ b/src/org/labkey/targetedms/view/spectrum/spectrumView.jsp
@@ -49,7 +49,7 @@
 <!-- PLACE HOLDER DIV FOR THE SPECTRUM -->
 <div id="<%=h(lorikeetOptionsId)%>"></div>
 <div id="<%=h(bean.getLorikeetId())%>"></div>
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
 
 +function($){
 Ext4.onReady(function () {
diff --git a/src/org/labkey/targetedms/view/summaryChartsView.jsp b/src/org/labkey/targetedms/view/summaryChartsView.jsp
index 97b11e07e..92573d3bb 100644
--- a/src/org/labkey/targetedms/view/summaryChartsView.jsp
+++ b/src/org/labkey/targetedms/view/summaryChartsView.jsp
@@ -127,7 +127,7 @@
         padding-left:105px;
     }
 </style>
-<script type="text/javascript">
+<script type="text/javascript" nonce="<%=getScriptNonce()%>">
     Ext4.onReady(function() {
 
     // data stores