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<div class="section" id="tutorial-for-musrfit">
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<span id="index-0"></span><h1>Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#tutorial-for-musrfit" title="Permalink to this headline">¶</a></h1>
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<div class="section" id="single-histogram-fit-tutorial">
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<h2>Single-histogram-fit tutorial<a class="headerlink" href="#single-histogram-fit-tutorial" title="Permalink to this headline">¶</a></h2>
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<section id="tutorial-for-musrfit">
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<span id="index-0"></span><h1>Tutorial for <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#tutorial-for-musrfit" title="Link to this heading"></a></h1>
|
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<section id="single-histogram-fit-tutorial">
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<h2>Single-histogram-fit tutorial<a class="headerlink" href="#single-histogram-fit-tutorial" title="Link to this heading"></a></h2>
|
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<p>The μSR-data-analysis process using musrfit is based on so-called msr files. These files contain all
|
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information needed for the analysis such as names of the data files, a theory function, fit and plot parameters,
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and so on. It is the idea of this page to explain the basic use of an msr file and the different programs
|
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@ -194,8 +116,8 @@ with the source-code distribution in the sub-directory <code class="docutils lit
|
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text editor. For convenience the editor <code class="docutils literal notranslate"><span class="pre">musredit</span></code> is provided which offer some msr-file-specific functionalities
|
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and additionally serve as front ends to the underlying programs. In the following it is assumed that the file is
|
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open within <code class="docutils literal notranslate"><span class="pre">musredit</span></code>.</p>
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<div class="section" id="the-msr-file">
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<h3>The msr file<a class="headerlink" href="#the-msr-file" title="Permalink to this headline">¶</a></h3>
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<section id="the-msr-file">
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<h3>The msr file<a class="headerlink" href="#the-msr-file" title="Link to this heading"></a></h3>
|
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<p>The msr file itself is divided into different blocks; a full description of the format can be found <a class="reference internal" href="user-manual.html#msr-file-format"><span class="std std-ref">here</span></a>.
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In the file <code class="docutils literal notranslate"><span class="pre">3110_tutorial.msr</span></code> these blocks are successively:</p>
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<p><a class="reference internal" href="user-manual.html#msr-title-block"><span class="std std-ref">The title</span></a></p>
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@ -258,7 +180,7 @@ sample holder), each with an amplitude (parameters 10 and 13), a depolarization
|
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</pre></div>
|
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</div>
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<p>The THEORY block is used to define a fit-parameter-dependent theory function used to model
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the decay asymmetry. Different <a class="reference internal" href="user-manual.html#msr-theory-block"><span class="std std-ref">predefined</span></a> and <a class="reference internal" href="user-manual.html#id38"><span class="std std-ref">user-defined</span></a>
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the decay asymmetry. Different <a class="reference internal" href="user-manual.html#msr-theory-block"><span class="std std-ref">predefined</span></a> and <a class="reference internal" href="user-manual.html#id41"><span class="std std-ref">user-defined</span></a>
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functions can be combined here. Theory lines following each other are <em>multiplied</em> and the <strong>+</strong> sign
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is used to add different (here: two) signal contributions. The numbers are the parameter numbers
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according to the <code class="docutils literal notranslate"><span class="pre">FITPARAMETER</span> <span class="pre">block</span></code>. <code class="docutils literal notranslate"><span class="pre">map</span></code> and <code class="docutils literal notranslate"><span class="pre">fun</span></code> are used to refer to
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@ -418,13 +340,13 @@ date and time as well as the absolute and normalized values of <span class="math
|
||||
number of degrees of freedom in the fit.
|
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These information only have a meaning if the fitting procedure has been executed at
|
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least once and the fit has converged!</p>
|
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</div>
|
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<div class="section" id="determine-t0-and-the-data-range-using-musrt0">
|
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<h3>Determine t0 and the data range using musrt0<a class="headerlink" href="#determine-t0-and-the-data-range-using-musrt0" title="Permalink to this headline">¶</a></h3>
|
||||
</section>
|
||||
<section id="determine-t0-and-the-data-range-using-musrt0">
|
||||
<h3>Determine t0 and the data range using musrt0<a class="headerlink" href="#determine-t0-and-the-data-range-using-musrt0" title="Link to this heading"></a></h3>
|
||||
<p>Before the given model can be fitted to the data, the data ranges and time zeros of the different
|
||||
<code class="docutils literal notranslate"><span class="pre">RUN</span> <span class="pre">blocks</span></code> have to be set correctly. This can be achieved using <a class="reference internal" href="user-manual.html#musrt0"><span class="std std-ref">musrt0</span></a>.
|
||||
Starting this program by selecting the <code class="docutils literal notranslate"><span class="pre">musrt0</span></code> button in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> or calling from a terminal</p>
|
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<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ musrt0 3110_tutorial.msr
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>musrt0<span class="w"> </span>3110_tutorial.msr
|
||||
</pre></div>
|
||||
</div>
|
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<p>opens an interactive window plotting the data of the first RUN block:</p>
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@ -441,38 +363,38 @@ when the cursor is found at a suitable location:</p>
|
||||
This procedure is repeated until all ranges have been set correctly. When finished with the last histogram
|
||||
the new t0 and data-range values will be written to the msr file. A full description of <code class="docutils literal notranslate"><span class="pre">musrt0</span></code> can be
|
||||
found <a class="reference internal" href="user-manual.html#musrt0"><span class="std std-ref">here</span></a>.</p>
|
||||
</div>
|
||||
<div class="section" id="fit-the-model-to-the-data-using-musrfit">
|
||||
<h3>Fit the model to the data using <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#fit-the-model-to-the-data-using-musrfit" title="Permalink to this headline">¶</a></h3>
|
||||
</section>
|
||||
<section id="fit-the-model-to-the-data-using-musrfit">
|
||||
<h3>Fit the model to the data using <code class="docutils literal notranslate"><span class="pre">musrfit</span></code><a class="headerlink" href="#fit-the-model-to-the-data-using-musrfit" title="Link to this heading"></a></h3>
|
||||
<p>Now that the basics of the msr file have been introduced and the necessary adjustments have been done one
|
||||
can proceed with fitting the specified model to the data. This is done by selecting the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> icon
|
||||
in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> or calling from a terminal</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ musrfit 3110_tutorial.msr
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>musrfit<span class="w"> </span>3110_tutorial.msr
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>After the fitting procedure has finished the msr file is updated and contains the newly determined values
|
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of the fit parameters.</p>
|
||||
</div>
|
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<div class="section" id="view-the-data-and-the-fit-using-musrview">
|
||||
<h3>View the data and the fit using <code class="docutils literal notranslate"><span class="pre">musrview</span></code><a class="headerlink" href="#view-the-data-and-the-fit-using-musrview" title="Permalink to this headline">¶</a></h3>
|
||||
</section>
|
||||
<section id="view-the-data-and-the-fit-using-musrview">
|
||||
<h3>View the data and the fit using <code class="docutils literal notranslate"><span class="pre">musrview</span></code><a class="headerlink" href="#view-the-data-and-the-fit-using-musrview" title="Link to this heading"></a></h3>
|
||||
<p>The data and the corresponding fit can be visualized by choosing the <code class="docutils literal notranslate"><span class="pre">musrview</span></code> icon in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> or
|
||||
calling from a terminal</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ musrview 3110_tutorial.msr
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>musrview<span class="w"> </span>3110_tutorial.msr
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>This creates the windows according to the given PLOT blocks in the msr file:</p>
|
||||
<img alt="_images/tutorial-musrview-1.png" src="_images/tutorial-musrview-1.png" />
|
||||
<p>The basic features of <code class="docutils literal notranslate"><span class="pre">musrview</span></code> can be found in the <code class="docutils literal notranslate"><span class="pre">Musrfit</span> <span class="pre">menu</span></code>. They include:</p>
|
||||
<ul class="simple">
|
||||
<li>export the shown data and the model to an ASCII file with comma-separated values</li>
|
||||
<li>presenting the difference between the shown data and the model (keyboard shortcut: <strong>d</strong>)</li>
|
||||
<li>calculate and show the Fourier transform of the shown data (keyboard shortcut: <strong>f</strong>), <em>e.g.</em> for
|
||||
the asymmetry of the “Up” and “Down” detectors:</li>
|
||||
<li><p>export the shown data and the model to an ASCII file with comma-separated values</p></li>
|
||||
<li><p>presenting the difference between the shown data and the model (keyboard shortcut: <strong>d</strong>)</p></li>
|
||||
<li><p>calculate and show the Fourier transform of the shown data (keyboard shortcut: <strong>f</strong>), <em>e.g.</em> for
|
||||
the asymmetry of the “Up” and “Down” detectors:</p></li>
|
||||
</ul>
|
||||
<img alt="_images/tutorial-musrview-FT.png" src="_images/tutorial-musrview-FT.png" />
|
||||
</div>
|
||||
<div class="section" id="process-multiple-msr-files-using-msr2data">
|
||||
<h3>Process multiple msr files using <code class="docutils literal notranslate"><span class="pre">msr2data</span></code><a class="headerlink" href="#process-multiple-msr-files-using-msr2data" title="Permalink to this headline">¶</a></h3>
|
||||
</section>
|
||||
<section id="process-multiple-msr-files-using-msr2data">
|
||||
<h3>Process multiple msr files using <code class="docutils literal notranslate"><span class="pre">msr2data</span></code><a class="headerlink" href="#process-multiple-msr-files-using-msr2data" title="Link to this heading"></a></h3>
|
||||
<p>This short introduction is concluded by calling attention to the program <a class="reference internal" href="msr2data.html#msr2data"><span class="std std-ref">msr2data</span></a>.
|
||||
As the name indicates the main purpose of this program is to extract the <code class="docutils literal notranslate"><span class="pre">FITPARAMETER</span></code> block
|
||||
information from multiple msr files with the same structure and to summarize them in a single
|
||||
@ -487,89 +409,52 @@ and finally summarize the FITPARAMETER block information of all processed files
|
||||
file <code class="docutils literal notranslate"><span class="pre">tutorial-T-dependence.dat</span></code> (simple columns). If further information on the temperature or the
|
||||
applied field is available in the data files these will be included as well in the resulting ASCII file.
|
||||
From the terminal this would be done as follows:</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ msr2data <span class="m">3110</span> <span class="m">3114</span> _tutorial fit-3110 -o tutorial-T-dependence.dat data
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$<span class="w"> </span>msr2data<span class="w"> </span><span class="m">3110</span><span class="w"> </span><span class="m">3114</span><span class="w"> </span>_tutorial<span class="w"> </span>fit-3110<span class="w"> </span>-o<span class="w"> </span>tutorial-T-dependence.dat<span class="w"> </span>data
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>To achieve the same in <code class="docutils literal notranslate"><span class="pre">musredit</span></code> (in this snapshot in the <em>dark theme</em>) one selects the <code class="docutils literal notranslate"><span class="pre">msr2data</span></code> icon and fills the form accordingly:</p>
|
||||
<img alt="_images/tutorial-musredit-msr2data.png" src="_images/tutorial-musredit-msr2data.png" />
|
||||
</div>
|
||||
<div class="section" id="further-reading">
|
||||
<h3>Further reading<a class="headerlink" href="#further-reading" title="Permalink to this headline">¶</a></h3>
|
||||
</section>
|
||||
<section id="further-reading">
|
||||
<h3>Further reading<a class="headerlink" href="#further-reading" title="Link to this heading"></a></h3>
|
||||
<p>This page only summarizes the very basic features and options of the programs contained in the <code class="docutils literal notranslate"><span class="pre">musrfit</span></code> suite.
|
||||
For a complete description please refer to the manuals of <a class="reference internal" href="user-manual.html#musrfit"><span class="std std-ref">musrfit</span></a> (including <a class="reference internal" href="user-manual.html#musrview"><span class="std std-ref">musrview</span></a>,
|
||||
<a class="reference internal" href="user-manual.html#musrt0"><span class="std std-ref">musrt0</span></a>, and <a class="reference internal" href="user-manual.html#musrft"><span class="std std-ref">musrFT</span></a>), <a class="reference internal" href="mupp.html#mupp"><span class="std std-ref">mupp</span></a>, <a class="reference internal" href="musredit.html#musredit-sec"><span class="std std-ref">musredit</span></a>, and <a class="reference internal" href="msr2data.html#msr2data"><span class="std std-ref">msr2data</span></a>.</p>
|
||||
</div>
|
||||
</div>
|
||||
<div class="section" id="asymmtery-fit-tutorial">
|
||||
<h2>Asymmtery-fit tutorial<a class="headerlink" href="#asymmtery-fit-tutorial" title="Permalink to this headline">¶</a></h2>
|
||||
</section>
|
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