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1 <tool id="fast_fiber_tracking" name="Fiber tracking" version="0.13.0">
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2 <description>using constrained spherical deconvolution </description>
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3 <requirements>
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4 <requirement type="package" version="0.13.0">dipy</requirement>
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5 </requirements>
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6 <command detect_errors="exit_code"><![CDATA[
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7 python '$__tool_directory__/fast_fiber_tracking.py'
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8 --drmi_dataset $drmi_dataset
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9 --output_csd_direction_field '$output_csd_direction_field'
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10 --output_det_streamlines '$output_det_streamlines'
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11 --output_fa_map '$output_fa_map'
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12 &>/dev/null
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13 ]]></command>
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14 <inputs>
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15 <param name="drmi_dataset" type="select" label="dRMI dataset">
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16 <option value="stanford_hardi" selected="true">stanford_hardi</option>
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17 <option value="sherbrooke_3shell">sherbrooke_3shell</option>
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18 </param>
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19 </inputs>
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20 <outputs>
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21 <data name="output_csd_direction_field" format="png" label="${tool.name}: CSD direction field" />
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22 <data name="output_det_streamlines" format="png" label="${tool.name}: streamlines" />
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23 <data name="output_fa_map" format="nifti1" label="${tool.name}: fractional anisotropic" />
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24 </outputs>
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25 <tests>
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26 <test>
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27 </test>
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28 </tests>
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29 <help>
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30 **What it does**
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31
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32 Performs fast fiber tracking using constrained spherical deconvolution (CSD) for local reconstruction and generates
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33 deterministic streamlines using the fiber directions (peaks) from CSD and fractional anisotropic (FA) from DTI as a
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34 stopping criteria for the tracking.
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35
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36 -----
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37
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38 **Options**
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39
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40 </help>
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41 <citations>
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42 </citations>
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43 </tool>
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