Added gradient calculation
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isotables/isotopapp/templates/posiiton.html
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81
isotables/isotopapp/templates/posiiton.html
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<head>
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<link href="https://cdn.jsdelivr.net/npm/bootstrap@5.3.3/dist/css/bootstrap.min.css" rel="stylesheet"
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integrity="sha384-QWTKZyjpPEjISv5WaRU9OFeRpok6YctnYmDr5pNlyT2bRjXh0JMhjY6hW+ALEwIH" crossorigin="anonymous">
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<link href=”https://cdn.pydata.org/bokeh/release/bokeh-3.7.1.min.css" rel=”stylesheet” type=”text/css”>
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<link href=”https://cdn.pydata.org/bokeh/release/bokeh-widgets-3.7.1.min.css" rel=”stylesheet” type=”text/css”>
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</head>
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<body>
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<div class="center">
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<h1>Isotopes</h1>
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<table class="table w-auto table-responsive-sm table-striped table-hover table-bordered">
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<caption>
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Table downloaded from <a href="https://easyspin.org/documentation/isotopetable.html">easyspin.org</a>
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(2023-07-29 markusro)
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</caption>
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<thead class="table-dark">
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<tr>
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<th scope="col">N</th>
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<th scope="col">Symbol</th>
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<th scope="col">Name</th>
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<th scope="col">f<sub>0</sub> in MHz</th>
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<th scope="col">Spin</th>
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<th scope="col">Nat. ab. in %</th>
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<th scope="col">γ in MHz/T</th>
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<th scope="col">Sens. in %(<sup>1</sup>H)</th>
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</tr>
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</thead>
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<tbody>
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{% for attr in ans %}
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<tr>
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{% for i in attr %}
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<td>{{ i }}</td>
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{% endfor %}
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</tr>
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{% endfor %}
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</tbody>
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</table>
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{{ div| safe }}
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<div>
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<script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/3.2.2/es5/latest.js"
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integrity="sha512-nUTIGJLS9aRMjQaRwpCiC+0Y2RzgW4sufFhFgyjHgn15DXLSfoVUaEa83CsNe2FSJpLXtfgdVfgL7a0lrbcBWA=="
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crossorigin="anonymous"
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referrerpolicy="no-referrer">
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</script>
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<script src="https://cdn.bokeh.org/bokeh/release/bokeh-3.7.1.min.js"></script>
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<script src="https://cdn.bokeh.org/bokeh/release/bokeh-widgets-3.7.1.min.js"></script>
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<script src="https://cdn.bokeh.org/bokeh/release/bokeh-tables-3.7.1.min.js"></script>
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<script src="https://cdn.bokeh.org/bokeh/release/bokeh-api-3.7.1.min.js"></script>
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<script src="https://cdn.bokeh.org/bokeh/release/bokeh-mathjax-3.7.1.min.js"></script>
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{{ script| safe }}
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</div>
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<a href="{% url 'home' %}">Go Back</a>
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</div>
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</body>
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<style>
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.center {
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margin: auto;
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width: 40%;
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padding: 10px;
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}
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caption {
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caption-side: bottom;
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padding: 8px;
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font-weight: normal;
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font-size: 0.8rem;
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text-align: left;
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}
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.table-striped {
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--bs-table-striped-bg: rgba(213, 217, 255, 0.7);
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}
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</style>
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77
isotables/isotopapp/templates/sfg.html
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isotables/isotopapp/templates/sfg.html
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<head>
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<link href="https://cdn.jsdelivr.net/npm/bootstrap@5.3.3/dist/css/bootstrap.min.css" rel="stylesheet"
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integrity="sha384-QWTKZyjpPEjISv5WaRU9OFeRpok6YctnYmDr5pNlyT2bRjXh0JMhjY6hW+ALEwIH" crossorigin="anonymous">
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</head>
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<style>
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.center {
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margin: auto;
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width: 60%;
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border: 3px solid #90befb;
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border: 3px solid #a5addb;
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padding: 10px;
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}
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</style>
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<div class="container text-left">
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<h1>SFG Position Calculator</h1>
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<form action="position">
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<div class="row row-cols-6">
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<div class="col"><label class="form-label">Source isotope:</label></div>
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<div class="col">
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<select name="isotope1" class="form-select" size="1">
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{% for i in isotopes %}
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<option value="{{ i.0 }}">{{ i.1 }}</option>
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{% endfor %}
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</select>
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</div>
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</div>
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<div class="row row-cols-6">
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<div class="col"><label class="form-label">Source frequency in MHz:</label></div>
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<div class="col">
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<input type="number" name="freq" class="form-control" step="any" value=100
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placeholder="Larmor frequency in MHz">
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</div>
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</div>
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<div class="row row-cols-6">
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<label class="form-label">Destination isotope:</label>
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<div class="col">
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<select name="isotope2" class="form-select" size="1">
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{% for i in isotopes %}
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<option value="{{ i.0 }}">{{ i.1 }}</option>
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{% endfor %}
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</select>
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</div>
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</div>
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<div class="row row-cols-6">
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<label class="form-label">Probe length:</label>
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<div class="col">
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<input type="number" name="probe_length" class="form-control" step="any"
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placeholder="Probe length in mm">
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</div>
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</div>
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<div class="row row-cols-6">
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<label class="form-label">Magnet</label>
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<div class="col">
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<select name="magnet" class="form-select" size="1">
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<option value="oxford_profile.dat">Oxford</option>
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<option value="oxford_profile.dat">Magnex</option>
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</select>
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</div>
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</div>
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<div class="row row-cols-6">
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<label class="form-label">Gradient in T/m:<br>(assuming ⌀5mm)</label>
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<div class="col"><input type="number" name="gradient" class="form-control" step="any"
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placeholder="Gradient in T/m"></div>
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<div class="col">
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<button type="submit" name="gradient_search" class="btn btn-primary btn-sm">Get position</button>
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</div>
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</div>
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</form>
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</div>
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<div>
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{{ ans }}
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</div>
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@ -3,6 +3,8 @@ from . import views
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urlpatterns = [
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urlpatterns = [
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path('', views.home, name='home'),
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path('', views.home, name='home'),
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path('result/', views.result, name='result'),
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path('result/', views.result, name='result'),
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path('sfg', views.sfg, name='sfg'),
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path('position/', views.position, name='position'),
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]
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]
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@ -1,14 +1,18 @@
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import os
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from math import pi
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from math import pi
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from io import BytesIO
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from io import BytesIO
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import base64
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import base64
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from bokeh.models.axes import LinearAxis
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from django.shortcuts import render
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from django.shortcuts import render
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from django.utils.safestring import mark_safe
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from django.utils.safestring import mark_safe
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import re
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import re
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import numpy as np
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from bokeh.plotting import figure
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from bokeh.plotting import figure
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from bokeh.embed import components
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from bokeh.embed import components
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from bokeh.models import Label, Node, MathML
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from bokeh.models import Label, Node, MathML, Range1d, Span
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from isotopapp.models import Isotope
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from isotopapp.models import Isotope
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# Create your views here.
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# Create your views here.
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@ -17,6 +21,10 @@ def home(request):
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isotopes = [i for i in Isotope.objects.all() if (i.gamma != 0 or i.stable)]
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isotopes = [i for i in Isotope.objects.all() if (i.gamma != 0 or i.stable)]
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return render(request, 'home.html', {'isotopes': [[f"{i.n_nucleons}{i.symbol}", mark_safe(f"<sup>{i.n_nucleons}</sup>{i.symbol}")] for i in isotopes],})
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return render(request, 'home.html', {'isotopes': [[f"{i.n_nucleons}{i.symbol}", mark_safe(f"<sup>{i.n_nucleons}</sup>{i.symbol}")] for i in isotopes],})
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def sfg(request):
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isotopes = [i for i in Isotope.objects.all() if (i.gamma != 0 or i.stable)]
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return render(request, 'sfg.html', {'isotopes': [[f"{i.n_nucleons}{i.symbol}", mark_safe(f"<sup>{i.n_nucleons}</sup>{i.symbol}")] for i in isotopes],})
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def extract_isotope_parts(isotope_str):
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def extract_isotope_parts(isotope_str):
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"""Extracts the number and element from an isotope string (e.g., '23Na')."""
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"""Extracts the number and element from an isotope string (e.g., '23Na')."""
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print(isotope_str)
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print(isotope_str)
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@ -131,3 +139,96 @@ def result(request):
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else:
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else:
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ans = []
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ans = []
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return render(request, 'result.html', {'ans': ans, 'script': script, 'div': div})
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return render(request, 'result.html', {'ans': ans, 'script': script, 'div': div})
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def position(request):
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print(request)
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n1, element1 = extract_isotope_parts(request.GET.get('isotope1'))
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isotope1 = Isotope.objects.filter(symbol=element1, n_nucleons=n1).get()
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print(os.path.abspath("."))
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data = np.loadtxt(request.GET.get('magnet'))
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_z_coords = data[:,0]
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_fields = data[:,1]
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_gradients = data[:,2]
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freq = float(request.GET.get('freq'))
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field_T = freq / isotope1.gamma
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sample_diameter = 5e-3
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gradient = float(request.GET.get('gradient'))
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# create a plot (bokeh)
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TOOLTIPS = [
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("index", "$index"),
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("(x,y)", "($x, $y)"),
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("desc", "@desc"),
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]
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plot = figure(outer_width=500, outer_height=500, match_aspect=False, tooltips=TOOLTIPS)
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frame_left = Node(target="frame", symbol="left", offset=5)
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frame_bottom = Node(target="frame", symbol="bottom", offset=0)
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frame_top = Node(target="frame", symbol="top", offset=0)
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#plot.ellipse(x=[0], y=[0], width=5, height=5, color="#D5D9FF", alpha=0.8, line_width=1, line_color="black")
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#plot.ellipse(x=[0], y= [2.5], width=5, height=5, color="#D5D9FF", alpha=0.4, line_width=1, line_color="black")
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#plot.ellipse(x=[0], y=[-2.5], width=5, height=5, color="#D5D9FF", alpha=0.4, line_width=1, line_color="black")
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plot.xaxis[0].axis_label = 'z in mm'
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plot.yaxis[0].axis_label = 'B0 in T'
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plot.line(x=_z_coords*1e3, y=_fields, color="navy", line_width=2)
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plot.yaxis[0].axis_label_text_color = "navy"
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plot.y_range = Range1d(-10, 10)
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plot.extra_y_ranges['gradient'] = Range1d(-200, 200)
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plot.line(x=_z_coords * 1e3, y=_gradients, color="crimson", line_width=2 , y_range_name="gradient")
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ax2 = LinearAxis(y_range_name="gradient", axis_label="g in T/m")
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ax2.axis_label_text_color = "crimson"
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plot.add_layout(ax2, 'left')
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# find fields where _fields == field:
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pos_threshold_indices = np.where(np.diff(np.sign(_fields + field_T)) != 0)[0]
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neg_threshold_indices = np.where(np.diff(np.sign(_fields - field_T)) != 0)[0]
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indices = np.concatenate((pos_threshold_indices, neg_threshold_indices))
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for p in indices:
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vline = Span(location=_z_coords[p]*1e3, dimension='height', line_color='gray', line_width=1)
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plot.renderers.extend([vline])
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label = Label(x=_z_coords[p]*1e3, y=_fields[p]+1, text=f"{_z_coords[p]*1e3:.2f},{_gradients[p]:.1f}T/m", text_baseline="middle",
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text_align="center", text_font_size="11pt")
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plot.add_layout(label)
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plot.circle(x=_z_coords[indices]*1e3, y=_fields[indices], radius=2, color="gray")
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plot.circle(x=_z_coords[indices]*1e3, y=_gradients[indices], radius=2, color="gray",y_range_name="gradient" )
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hline1 = Span(location=field_T, dimension='width', line_color='gray', line_width=1)
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hline2 = Span(location=-field_T, dimension='width', line_color='gray', line_width=1)
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plot.renderers.extend([hline1, hline2])
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close_isotopes = []
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for isotope in Isotope.objects.all():
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if isotope.gamma == 0: continue
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if not isotope.stable: continue
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z = (freq/isotope.gamma-field_T)/gradient
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if abs(z) <= sample_diameter:
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i_info = isotope_info(isotope, field_T)
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#i_info[3] = f"{z*1e3:.1f} mm"
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close_isotopes.append(i_info)
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#plot.rect(x=[0], y=[z*1e3], width=5, height=0.2, color="black", alpha=0.6)
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#label = Label(x=2.6, y=z*1e3, text=f"{isotope.n_nucleons}{isotope.symbol}", text_baseline="middle", text_align="left", text_font_size="16pt")
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#plot.add_layout(label)
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citation = Label(
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x=frame_left,
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y=frame_bottom,
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anchor="bottom_left",
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text=f"{isotope1.n_nucleons}{isotope1.symbol}: {freq:.1f} MHz\ng={gradient:.1f} T/m\n5 mm sample dia.",
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padding=5,
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border_radius=5,
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border_line_color="#D5D9FF", background_fill_color="white",
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)
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plot.add_layout(citation)
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# boke plot
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script, div = components(plot)
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ans = sorted(close_isotopes, key=lambda x: float(x[3]))
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return render(request, 'posiiton.html', {'ans': ans, 'script': script, 'div': div})
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1984
isotables/oxford_profile.dat
Normal file
1984
isotables/oxford_profile.dat
Normal file
File diff suppressed because it is too large
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