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<section id="processing-multi-pld-asl-data-from-vci-and-mas2-studies-using-exploreasl">
<h1>Processing multi PLD ASL data from VCI and MAS2 studies using ExploreASL<a class="headerlink" href="#processing-multi-pld-asl-data-from-vci-and-mas2-studies-using-exploreasl" title="Link to this heading"></a></h1>
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="c1">## in Shell</span>
<span class="c1">## ++++++++++++++++++++++</span>
<span class="n">module</span> <span class="n">load</span> <span class="n">matlab</span><span class="o">/</span><span class="n">R2019a</span>
<span class="n">matlab</span> <span class="o">&</span> <span class="c1"># OR matlab -nodesktop -nodisplay</span>
<span class="o">%%</span> <span class="ow">in</span> <span class="n">MATLAB</span>
<span class="o">%%</span> <span class="o">++++++++++++++++++++++</span>
<span class="n">addpath</span><span class="p">(</span><span class="s1">'/srv/scratch/cheba/Imaging/software/ExploreASL-1.10.1'</span><span class="p">)</span>
<span class="o">%</span> <span class="mf">1.</span> <span class="n">Convert</span> <span class="n">DICOM</span> <span class="n">to</span> <span class="n">BIDS</span>
<span class="n">DatasetRoot</span> <span class="o">=</span> <span class="s1">'/srv/scratch/cheba/Imaging/mas2/ppt1/dnld_from_flywheel/asl/dicom/mTI16_800-3800_tgse_pcasl_3.4x3.4x4_14_31_2_24slc'</span><span class="p">;</span>
<span class="n">ImportModules</span> <span class="o">=</span> <span class="p">[</span><span class="mi">1</span> <span class="mi">1</span> <span class="mi">0</span> <span class="mi">0</span><span class="p">];</span> <span class="o">%</span> <span class="n">yes</span> <span class="n">DCM2NII</span><span class="p">,</span> <span class="n">no</span> <span class="n">NII2BIDS</span><span class="p">,</span> <span class="n">no</span> <span class="n">DEFACE</span><span class="p">,</span> <span class="n">no</span> <span class="n">BIDS2LEGACY</span>
<span class="n">ProcessModules</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span> <span class="mi">0</span> <span class="mi">0</span><span class="p">];</span> <span class="o">%</span> <span class="n">no</span> <span class="n">structural</span> <span class="n">processing</span><span class="p">,</span> <span class="n">no</span> <span class="n">ASL</span> <span class="n">processing</span><span class="p">,</span> <span class="n">no</span> <span class="n">population</span> <span class="n">processing</span>
<span class="n">bPause</span> <span class="o">=</span> <span class="mi">0</span><span class="p">;</span> <span class="o">%</span> <span class="ow">not</span> <span class="n">pause</span> <span class="n">workflow</span> <span class="n">before</span> <span class="n">ExploreASL</span> <span class="n">pipeline</span>
<span class="n">iWorker</span> <span class="o">=</span> <span class="mi">8</span><span class="p">;</span>
<span class="n">nWorkers</span> <span class="o">=</span> <span class="mi">8</span><span class="p">;</span>
<span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="o">=</span> <span class="n">ExploreASL</span><span class="p">([</span><span class="n">DatasetRoot</span><span class="p">,</span> <span class="n">ImportModules</span><span class="p">,</span> <span class="n">ProcessModules</span><span class="p">,</span> <span class="n">bPause</span><span class="p">,</span> <span class="n">iWorker</span><span class="p">,</span> <span class="n">nWorkers</span><span class="p">])</span>
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