Commit c0093b46 authored by Bilheux, Jean-Christophe's avatar Bilheux, Jean-Christophe
Browse files

New site is ready

parent 01c5cc2c
......@@ -10,16 +10,16 @@
<title>404 Page not found</title>
<link href="/css/nucleus.css?1525180641" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525180641" rel="stylesheet">
<link href="/css/hybrid.css?1525180641" rel="stylesheet">
<link href="/css/featherlight.min.css?1525180641" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525180641" rel="stylesheet">
<link href="/css/horsey.css?1525180641" rel="stylesheet">
<link href="/css/theme.css?1525180641" rel="stylesheet">
<link href="/css/hugo-theme.css?1525180641" rel="stylesheet">
<link href="/css/nucleus.css?1525278866" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525278866" rel="stylesheet">
<link href="/css/hybrid.css?1525278866" rel="stylesheet">
<link href="/css/featherlight.min.css?1525278866" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525278866" rel="stylesheet">
<link href="/css/horsey.css?1525278866" rel="stylesheet">
<link href="/css/theme.css?1525278866" rel="stylesheet">
<link href="/css/hugo-theme.css?1525278866" rel="stylesheet">
<link href="/css/theme-blue.css?1525180641" rel="stylesheet">
<link href="/css/theme-blue.css?1525278866" rel="stylesheet">
<style type="text/css">
:root #header + #content > #left > #rlblock_left {
......
......@@ -13,19 +13,19 @@
<title>Capabilities :: Documentation for Hugo Learn Theme</title>
<link href="/css/nucleus.css?1525180640" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525180640" rel="stylesheet">
<link href="/css/hybrid.css?1525180640" rel="stylesheet">
<link href="/css/featherlight.min.css?1525180640" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525180640" rel="stylesheet">
<link href="/css/auto-complete.css?1525180640" rel="stylesheet">
<link href="/css/theme.css?1525180640" rel="stylesheet">
<link href="/css/hugo-theme.css?1525180640" rel="stylesheet">
<link href="/css/nucleus.css?1525278866" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525278866" rel="stylesheet">
<link href="/css/hybrid.css?1525278866" rel="stylesheet">
<link href="/css/featherlight.min.css?1525278866" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525278866" rel="stylesheet">
<link href="/css/auto-complete.css?1525278866" rel="stylesheet">
<link href="/css/theme.css?1525278866" rel="stylesheet">
<link href="/css/hugo-theme.css?1525278866" rel="stylesheet">
<link href="/css/theme-blue.css?1525180640" rel="stylesheet">
<link href="/css/theme-blue.css?1525278866" rel="stylesheet">
<script src="/js/jquery-2.x.min.js?1525180640"></script>
<script src="/js/jquery-2.x.min.js?1525278866"></script>
<style type="text/css">
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fa fa-close"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1525180640"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525180640"></script>
<script type="text/javascript" src="/js/lunr.min.js?1525278866"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525278866"></script>
<script type="text/javascript">
var baseurl = "\/en";
</script>
<script type="text/javascript" src="/js/search.js?1525180640"></script>
<script type="text/javascript" src="/js/search.js?1525278866"></script>
</div>
......@@ -2362,20 +2362,20 @@
<div style="left: -1000px; overflow: scroll; position: absolute; top: -1000px; border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;">
<div style="border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;"></div>
</div>
<script src="/js/clipboard.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525180640"></script>
<script src="/js/jquery.sticky.js?1525180640"></script>
<script src="/js/featherlight.min.js?1525180640"></script>
<script src="/js/html5shiv-printshiv.min.js?1525180640"></script>
<script src="/js/highlight.pack.js?1525180640"></script>
<script src="/js/clipboard.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525278866"></script>
<script src="/js/jquery.sticky.js?1525278866"></script>
<script src="/js/featherlight.min.js?1525278866"></script>
<script src="/js/html5shiv-printshiv.min.js?1525278866"></script>
<script src="/js/highlight.pack.js?1525278866"></script>
<script>hljs.initHighlightingOnLoad();</script>
<script src="/js/modernizr.custom.71422.js?1525180640"></script>
<script src="/js/learn.js?1525180640"></script>
<script src="/js/hugo-learn.js?1525180640"></script>
<script src="/js/modernizr.custom.71422.js?1525278866"></script>
<script src="/js/learn.js?1525278866"></script>
<script src="/js/hugo-learn.js?1525278866"></script>
<link href="/mermaid/mermaid.css?1525180640" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525180640"></script>
<link href="/mermaid/mermaid.css?1525278866" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525278866"></script>
<script>
mermaid.initialize({ startOnLoad: true });
</script>
......
......@@ -13,19 +13,19 @@
<title>Contacts :: Documentation for Hugo Learn Theme</title>
<link href="/css/nucleus.css?1525180640" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525180640" rel="stylesheet">
<link href="/css/hybrid.css?1525180640" rel="stylesheet">
<link href="/css/featherlight.min.css?1525180640" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525180640" rel="stylesheet">
<link href="/css/auto-complete.css?1525180640" rel="stylesheet">
<link href="/css/theme.css?1525180640" rel="stylesheet">
<link href="/css/hugo-theme.css?1525180640" rel="stylesheet">
<link href="/css/nucleus.css?1525278866" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525278866" rel="stylesheet">
<link href="/css/hybrid.css?1525278866" rel="stylesheet">
<link href="/css/featherlight.min.css?1525278866" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525278866" rel="stylesheet">
<link href="/css/auto-complete.css?1525278866" rel="stylesheet">
<link href="/css/theme.css?1525278866" rel="stylesheet">
<link href="/css/hugo-theme.css?1525278866" rel="stylesheet">
<link href="/css/theme-blue.css?1525180640" rel="stylesheet">
<link href="/css/theme-blue.css?1525278866" rel="stylesheet">
<script src="/js/jquery-2.x.min.js?1525180640"></script>
<script src="/js/jquery-2.x.min.js?1525278866"></script>
<style type="text/css">
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fa fa-close"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1525180640"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525180640"></script>
<script type="text/javascript" src="/js/lunr.min.js?1525278866"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525278866"></script>
<script type="text/javascript">
var baseurl = "\/en";
</script>
<script type="text/javascript" src="/js/search.js?1525180640"></script>
<script type="text/javascript" src="/js/search.js?1525278866"></script>
</div>
......@@ -1408,28 +1408,28 @@
<option id="es" value="/es/credits/">Spanish</option>
<option id="fr" value="/fr/credits/">Français</option>
</select>
<svg version="1.1" id="Capa_1" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink" x="0px" y="0px"
......@@ -2424,20 +2424,20 @@
<div style="left: -1000px; overflow: scroll; position: absolute; top: -1000px; border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;">
<div style="border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;"></div>
</div>
<script src="/js/clipboard.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525180640"></script>
<script src="/js/jquery.sticky.js?1525180640"></script>
<script src="/js/featherlight.min.js?1525180640"></script>
<script src="/js/html5shiv-printshiv.min.js?1525180640"></script>
<script src="/js/highlight.pack.js?1525180640"></script>
<script src="/js/clipboard.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525278866"></script>
<script src="/js/jquery.sticky.js?1525278866"></script>
<script src="/js/featherlight.min.js?1525278866"></script>
<script src="/js/html5shiv-printshiv.min.js?1525278866"></script>
<script src="/js/highlight.pack.js?1525278866"></script>
<script>hljs.initHighlightingOnLoad();</script>
<script src="/js/modernizr.custom.71422.js?1525180640"></script>
<script src="/js/learn.js?1525180640"></script>
<script src="/js/hugo-learn.js?1525180640"></script>
<script src="/js/modernizr.custom.71422.js?1525278866"></script>
<script src="/js/learn.js?1525278866"></script>
<script src="/js/hugo-learn.js?1525278866"></script>
<link href="/mermaid/mermaid.css?1525180640" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525180640"></script>
<link href="/mermaid/mermaid.css?1525278866" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525278866"></script>
<script>
mermaid.initialize({ startOnLoad: true });
</script>
......
......@@ -13,19 +13,19 @@
<title>Frequently Asked Questions :: Documentation for Hugo Learn Theme</title>
<link href="/css/nucleus.css?1525180640" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525180640" rel="stylesheet">
<link href="/css/hybrid.css?1525180640" rel="stylesheet">
<link href="/css/featherlight.min.css?1525180640" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525180640" rel="stylesheet">
<link href="/css/auto-complete.css?1525180640" rel="stylesheet">
<link href="/css/theme.css?1525180640" rel="stylesheet">
<link href="/css/hugo-theme.css?1525180640" rel="stylesheet">
<link href="/css/nucleus.css?1525278866" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525278866" rel="stylesheet">
<link href="/css/hybrid.css?1525278866" rel="stylesheet">
<link href="/css/featherlight.min.css?1525278866" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525278866" rel="stylesheet">
<link href="/css/auto-complete.css?1525278866" rel="stylesheet">
<link href="/css/theme.css?1525278866" rel="stylesheet">
<link href="/css/hugo-theme.css?1525278866" rel="stylesheet">
<link href="/css/theme-blue.css?1525180640" rel="stylesheet">
<link href="/css/theme-blue.css?1525278866" rel="stylesheet">
<script src="/js/jquery-2.x.min.js?1525180640"></script>
<script src="/js/jquery-2.x.min.js?1525278866"></script>
<style type="text/css">
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fa fa-close"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1525180640"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525180640"></script>
<script type="text/javascript" src="/js/lunr.min.js?1525278866"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525278866"></script>
<script type="text/javascript">
var baseurl = "\/en";
</script>
<script type="text/javascript" src="/js/search.js?1525180640"></script>
<script type="text/javascript" src="/js/search.js?1525278866"></script>
</div>
......@@ -1408,28 +1408,28 @@
<option id="es" value="/es/faq/">Spanish</option>
<option id="fr" value="/fr/faq/">Français</option>
</select>
<svg version="1.1" id="Capa_1" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink" x="0px" y="0px"
......@@ -2820,20 +2820,20 @@ TIFF Directory at offset 0x800008 (8388616)
<div style="left: -1000px; overflow: scroll; position: absolute; top: -1000px; border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;">
<div style="border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;"></div>
</div>
<script src="/js/clipboard.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525180640"></script>
<script src="/js/jquery.sticky.js?1525180640"></script>
<script src="/js/featherlight.min.js?1525180640"></script>
<script src="/js/html5shiv-printshiv.min.js?1525180640"></script>
<script src="/js/highlight.pack.js?1525180640"></script>
<script src="/js/clipboard.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525278866"></script>
<script src="/js/jquery.sticky.js?1525278866"></script>
<script src="/js/featherlight.min.js?1525278866"></script>
<script src="/js/html5shiv-printshiv.min.js?1525278866"></script>
<script src="/js/highlight.pack.js?1525278866"></script>
<script>hljs.initHighlightingOnLoad();</script>
<script src="/js/modernizr.custom.71422.js?1525180640"></script>
<script src="/js/learn.js?1525180640"></script>
<script src="/js/hugo-learn.js?1525180640"></script>
<script src="/js/modernizr.custom.71422.js?1525278866"></script>
<script src="/js/learn.js?1525278866"></script>
<script src="/js/hugo-learn.js?1525278866"></script>
<link href="/mermaid/mermaid.css?1525180640" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525180640"></script>
<link href="/mermaid/mermaid.css?1525278866" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525278866"></script>
<script>
mermaid.initialize({ startOnLoad: true });
</script>
......
......@@ -13,19 +13,19 @@
<title>Github Repositories :: Documentation for Hugo Learn Theme</title>
<link href="/css/nucleus.css?1525180640" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525180640" rel="stylesheet">
<link href="/css/hybrid.css?1525180640" rel="stylesheet">
<link href="/css/featherlight.min.css?1525180640" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525180640" rel="stylesheet">
<link href="/css/auto-complete.css?1525180640" rel="stylesheet">
<link href="/css/theme.css?1525180640" rel="stylesheet">
<link href="/css/hugo-theme.css?1525180640" rel="stylesheet">
<link href="/css/nucleus.css?1525278866" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525278866" rel="stylesheet">
<link href="/css/hybrid.css?1525278866" rel="stylesheet">
<link href="/css/featherlight.min.css?1525278866" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525278866" rel="stylesheet">
<link href="/css/auto-complete.css?1525278866" rel="stylesheet">
<link href="/css/theme.css?1525278866" rel="stylesheet">
<link href="/css/hugo-theme.css?1525278866" rel="stylesheet">
<link href="/css/theme-blue.css?1525180640" rel="stylesheet">
<link href="/css/theme-blue.css?1525278866" rel="stylesheet">
<script src="/js/jquery-2.x.min.js?1525180640"></script>
<script src="/js/jquery-2.x.min.js?1525278866"></script>
<style type="text/css">
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fa fa-close"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1525180640"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525180640"></script>
<script type="text/javascript" src="/js/lunr.min.js?1525278866"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525278866"></script>
<script type="text/javascript">
var baseurl = "\/en";
</script>
<script type="text/javascript" src="/js/search.js?1525180640"></script>
<script type="text/javascript" src="/js/search.js?1525278866"></script>
</div>
......@@ -1408,28 +1408,28 @@
<option id="es" value="/es/github/">Spanish</option>
<option id="fr" value="/fr/github/">Français</option>
</select>
<svg version="1.1" id="Capa_1" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink" x="0px" y="0px"
......@@ -2350,20 +2350,20 @@ repositories hosting our programs</p>
<div style="left: -1000px; overflow: scroll; position: absolute; top: -1000px; border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;">
<div style="border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;"></div>
</div>
<script src="/js/clipboard.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.min.js?1525180640"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525180640"></script>
<script src="/js/jquery.sticky.js?1525180640"></script>
<script src="/js/featherlight.min.js?1525180640"></script>
<script src="/js/html5shiv-printshiv.min.js?1525180640"></script>
<script src="/js/highlight.pack.js?1525180640"></script>
<script src="/js/clipboard.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.min.js?1525278866"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1525278866"></script>
<script src="/js/jquery.sticky.js?1525278866"></script>
<script src="/js/featherlight.min.js?1525278866"></script>
<script src="/js/html5shiv-printshiv.min.js?1525278866"></script>
<script src="/js/highlight.pack.js?1525278866"></script>
<script>hljs.initHighlightingOnLoad();</script>
<script src="/js/modernizr.custom.71422.js?1525180640"></script>
<script src="/js/learn.js?1525180640"></script>
<script src="/js/hugo-learn.js?1525180640"></script>
<script src="/js/modernizr.custom.71422.js?1525278866"></script>
<script src="/js/learn.js?1525278866"></script>
<script src="/js/hugo-learn.js?1525278866"></script>
<link href="/mermaid/mermaid.css?1525180640" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525180640"></script>
<link href="/mermaid/mermaid.css?1525278866" type="text/css" rel="stylesheet" />
<script src="/mermaid/mermaid.js?1525278866"></script>
<script>
mermaid.initialize({ startOnLoad: true });
</script>
......
......@@ -13,19 +13,19 @@
<title>Neutron Imaging :: Documentation for Hugo Learn Theme</title>
<link href="/css/nucleus.css?1525180640" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525180640" rel="stylesheet">
<link href="/css/hybrid.css?1525180640" rel="stylesheet">
<link href="/css/featherlight.min.css?1525180640" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525180640" rel="stylesheet">
<link href="/css/auto-complete.css?1525180640" rel="stylesheet">
<link href="/css/theme.css?1525180640" rel="stylesheet">
<link href="/css/hugo-theme.css?1525180640" rel="stylesheet">
<link href="/css/nucleus.css?1525278866" rel="stylesheet">
<link href="/css/font-awesome.min.css?1525278866" rel="stylesheet">
<link href="/css/hybrid.css?1525278866" rel="stylesheet">
<link href="/css/featherlight.min.css?1525278866" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1525278866" rel="stylesheet">
<link href="/css/auto-complete.css?1525278866" rel="stylesheet">
<link href="/css/theme.css?1525278866" rel="stylesheet">
<link href="/css/hugo-theme.css?1525278866" rel="stylesheet">
<link href="/css/theme-blue.css?1525180640" rel="stylesheet">
<link href="/css/theme-blue.css?1525278866" rel="stylesheet">
<script src="/js/jquery-2.x.min.js?1525180640"></script>
<script src="/js/jquery-2.x.min.js?1525278866"></script>
<style type="text/css">
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fa fa-close"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1525180640"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525180640"></script>
<script type="text/javascript" src="/js/lunr.min.js?1525278866"></script>
<script type="text/javascript" src="/js/auto-complete.js?1525278866"></script>
<script type="text/javascript">
var baseurl = "\/en";
</script>
<script type="text/javascript" src="/js/search.js?1525180640"></script>
<script type="text/javascript" src="/js/search.js?1525278866"></script>
</div>
......@@ -1408,28 +1408,28 @@
<option id="fr" value="/fr/">Français</option>
<option id="es" value="/es/">Spanish</option>
</select>
<svg version="1.1" id="Capa_1" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink" x="0px" y="0px"
......@@ -2351,20 +2351,20 @@ web site, and always <strong>welcome your comments</strong> to improve it (conta
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"title": "Registration",
"tags": [],
"description": "",
"content": " Notebook name: registration.ipynb\nDescription This notebook will allow the registration (alignment) of a set of images using a reference image of your choice.\nHere are the steps (bold for user input/manipulation)\n Select the stack of images launch application Perform Auto alignment and/or Align images manually use profile to help in the alignment and sliders to check images overlap Start the notebook If you need help accessing this notebook, check the How To \u0026gt; Start the python notebooks tutorial.\nSelect your IPTS Need help using the IPTS selector?\n Select Images to Process Select the images you want to process using the File Selector. Once you click the Select button, the time stamp and the images will be automatically loaded. Wait for the progress bar to be done.\nNeed help using the File Selector?\n Registration UI Registration Methods You will find 4 ways to register your data\n Automatic mode (let the program try to align your data for you) Manual mode (you have full control of how to move each of the image manually) Marker mode (define markers on the images and align them) Profile mode (use high contrast feature to align horizontally and vertically images) \nAuto Registration Let the program perform auto-registration of all the images selected using the default first image as a reference by clicking Auto Registration\n\nManual Registration If you choose to manually align the images (except the reference image), click the Manual Registration button. Then move manually the images selected using the manual registration tool widgets.\n\nRegistration using Markers Click the Markers\u0026hellip; button to launch a new window.\nYou can define as manay markers as you want for each image. Then using Align images Using Markers button will align all the images according to the best overlap value of the markers.\nYou can copy/paste markers position using right click on the table.\n\nRegistration using Profiles Using a high contrast feature of the images (like a man made marker on the side of the sample), the program calculates the edge of this feature for all the images. This edge position (vertically and horizontally) is then used to register the images. If you are curious about the algorithm used to define the edge position, we are using the same algorithm as the water intake algorithm called sliding average.\n position the horizontal and vertical profiles on top of high contrast object change size (lenght and width) of profile regions if needed calculate edge (peak position) of marker in all images select one of the bottom 3 options to export, save registered images. Tools to Help You Grid You can add a grid on top of your images to help you in the manual alignment. Click the Grid \u0026gt; display at the top left corner of the UI. Then play with the slider to change the size of the grid.\nProfile You can display the profile of the image selected and of the reference image to help align the images.\nSimply move the edge of the profile lines. The profile of all the images selected (+ reference image) will be displayed.\nOpacity Slider The UI provides two types of opacity sliders.\n Selection vs Reference Image Images Selected Selection vs Reference Image This slider will show up whenever at least one file, other than the reference image, is selected in the table (bottom of UI).\n When the cursor is at the top of the slider, the mean of all the images selected is displayed (100% of selection is displayed) When the cursor is at the bottom of the slider, only the reference image is displayed (0% of selection is displayed) All other position will display a x% of the selected images and then (1-x)% of the reference image. Images Selected Whenever at least two images are selected (other than reference image), a checkbox labeled all and a slider will show up on the left of the UI.\nBy default all the images selected are display (mean of all images). But if you uncheck the all checkbox, then you can gradually display the imagess from the first one to the last one.\nThis slider will allow to go from the first image selected to the second by increasing the opacity of the first one, and decreasing the opacity of the second one. Once only the second image is display, keep moving the cursor will bring to display the third image and the second image will vanish.\nThe goal of this slider is to gradually display the images one by one.\nThe right slider to display current image vs reference image is always available.\n \u0026lt;\u0026lt;\u0026lt;\u0026lt;\u0026lt;\u0026lt;\u0026lt; HEAD Export By clicking the Export \u0026hellip; button (bottom right) you will export the images registered into a folder you select.\nAdvanced users All the data registered can be access from the python notebook\n\u0026gt;\u0026gt;\u0026gt; data_registered = o_registration.data_dict \u0026gt;\u0026gt;\u0026gt; print(np.shape(data_registered['data'])) (8, 2048, 2048) you can also reach the list of file names and their metadata\n\u0026gt;\u0026gt;\u0026gt; import pprint \u0026gt;\u0026gt;\u0026gt; pprint.pprint(data_registered['file_name']) ['/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0000.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0031.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0032.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0033.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0034.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0035.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0036.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0037.tif'] \u0026gt;\u0026gt;\u0026gt; pprint.pprint(data_registered['metadata'][0]) {256: 2048, 257: 2048, 258: (16,), 259: 1, 262: 1, 270: 'slope = 2.13626E-05 \\roffset = 0.00000E+00\\r', 273: (8,), 277: 1, 278: 2048, 279: (8388608,), 282: 10.0, 283: 10.0, 296: 3, 320: (0,), 339: (1,)} 3843d0536ca877fa3d22b4a1faea0d7ddbf4e3c9\n "
"content": " Notebook name: registration.ipynb\nDescription This notebook will allow the registration (alignment) of a set of images using a reference image of your choice.\nHere are the steps (bold for user input/manipulation)\n Select the stack of images launch application Perform Auto alignment and/or Align images manually use profile to help in the alignment and sliders to check images overlap Start the notebook If you need help accessing this notebook, check the How To \u0026gt; Start the python notebooks tutorial.\nSelect your IPTS Need help using the IPTS selector?\n Select Images to Process Select the images you want to process using the File Selector. Once you click the Select button, the time stamp and the images will be automatically loaded. Wait for the progress bar to be done.\nNeed help using the File Selector?\n Registration UI Registration Methods You will find 4 ways to register your data\n Automatic mode (let the program try to align your data for you) Manual mode (you have full control of how to move each of the image manually) Marker mode (define markers on the images and align them) Profile mode (use high contrast feature to align horizontally and vertically images) \nAuto Registration Let the program perform auto-registration of all the images selected using the default first image as a reference by clicking Auto Registration\n\nManual Registration If you choose to manually align the images (except the reference image), click the Manual Registration button. Then move manually the images selected using the manual registration tool widgets.\n\nRegistration using Markers Click the Markers\u0026hellip; button to launch a new window.\nYou can define as manay markers as you want for each image. Then using Align images Using Markers button will align all the images according to the best overlap value of the markers.\nYou can copy/paste markers position using right click on the table.\n\nRegistration using Profiles Using a high contrast feature of the images (like a man made marker on the side of the sample), the program calculates the edge of this feature for all the images. This edge position (vertically and horizontally) is then used to register the images. If you are curious about the algorithm used to define the edge position, we are using the same algorithm as the water intake algorithm called sliding average.\n position the horizontal and vertical profiles on top of high contrast object change size (lenght and width) of profile regions if needed calculate edge (peak position) of marker in all images select one of the bottom 3 options to export, save registered images. Tools to Help You Grid You can add a grid on top of your images to help you in the manual alignment. Click the Grid \u0026gt; display at the top left corner of the UI. Then play with the slider to change the size of the grid.\nProfile You can display the profile of the image selected and of the reference image to help align the images.\nSimply move the edge of the profile lines. The profile of all the images selected (+ reference image) will be displayed.\nOpacity Slider The UI provides two types of opacity sliders.\n Selection vs Reference Image Images Selected Selection vs Reference Image This slider will show up whenever at least one file, other than the reference image, is selected in the table (bottom of UI).\n When the cursor is at the top of the slider, the mean of all the images selected is displayed (100% of selection is displayed) When the cursor is at the bottom of the slider, only the reference image is displayed (0% of selection is displayed) All other position will display a x% of the selected images and then (1-x)% of the reference image. Images Selected Whenever at least two images are selected (other than reference image), a checkbox labeled all and a slider will show up on the left of the UI.\nBy default all the images selected are display (mean of all images). But if you uncheck the all checkbox, then you can gradually display the imagess from the first one to the last one.\nThis slider will allow to go from the first image selected to the second by increasing the opacity of the first one, and decreasing the opacity of the second one. Once only the second image is display, keep moving the cursor will bring to display the third image and the second image will vanish.\nThe goal of this slider is to gradually display the images one by one.\nThe right slider to display current image vs reference image is always available.\n Export By clicking the Export \u0026hellip; button (bottom right) you will export the images registered into a folder you select.\nAdvanced users All the data registered can be access from the python notebook\n\u0026gt;\u0026gt;\u0026gt; data_registered = o_registration.data_dict \u0026gt;\u0026gt;\u0026gt; print(np.shape(data_registered['data'])) (8, 2048, 2048) you can also reach the list of file names and their metadata\n\u0026gt;\u0026gt;\u0026gt; import pprint \u0026gt;\u0026gt;\u0026gt; pprint.pprint(data_registered['file_name']) ['/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0000.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0031.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0032.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0033.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0034.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0035.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0036.tif', '/Volumes/my_book_thunderbolt_duo/IPTS/IPTS-19921-Charles/02/im0037.tif'] \u0026gt;\u0026gt;\u0026gt; pprint.pprint(data_registered['metadata'][0]) {256: 2048, 257: 2048, 258: (16,), 259: 1, 262: 1, 270: 'slope = 2.13626E-05 \\roffset = 0.00000E+00\\r', 273: (8,), 277: 1, 278: 2048, 279: (8388608,), 282: 10.0, 283: 10.0, 296: 3, 320: (0,), 339: (1,)} "
},
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"uri": "/en/tutorial/notebooks/resonance_imaging_experiment_vs_theory/",
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......@@ -13,19 +13,19 @@
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