<tool id="diffusion_signal_reconstruction" name="Reconstruct diffusion signal" version="0.13.0">
    <description>with Tensor model</description>
    <requirements>
        <requirement type="package" version="0.13.0">dipy</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
python '$__tool_directory__/diffusion_signal_reconstruction.py'
--input $input
--input_extra_files_path '$input.extra_files_path'
--output_nifti1_evecs '$output_nifti1_evecs'
--output_nifti1_evecs_files_path '$output_nifti1_evecs.files_path'
--output_nifti1_fa '$output_nifti1_fa'
--output_nifti1_fa_files_path '$output_nifti1_fa.files_path'
--output_nifti1_md '$output_nifti1_md'
--output_nifti1_md_files_path '$output_nifti1_md.files_path'
--output_nifti1_rgb '$output_nifti1_rgb'
--output_nifti1_rgb_files_path '$output_nifti1_rgb.files_path'
--output_png_ellipsoids '$output_png_ellipsoids'
--output_png_middle_axial_slice '$output_png_middle_axial_slice'
--output_png_odfs '$output_png_odfs'
&>/dev/null
    ]]></command>
    <inputs>
        <param name="input" type="data" format="nifti1" label="dRMI dataset"/>
    </inputs>
    <outputs>
        <data name="output_nifti1_evecs" format="nifti1" label="${tool.name}: eigen vectors" />
        <data name="output_nifti1_fa" format="nifti1" label="${tool.name}: fractional anisotropy" />
        <data name="output_nifti1_md" format="nifti1" label="${tool.name}: mean diffusivity" />
        <data name="output_nifti1_rgb" format="nifti1" label="${tool.name}: RGB-mape" />
        <data name="output_png_middle_axial_slice" format="png" label="${tool.name}: middle axial slice without (left) and with (right) diffusion weighting" />
        <data name="output_png_odfs" format="png" label="${tool.name}: orientation distribution functions" />
        <data name="output_png_ellipsoids" format="png" label="${tool.name}: colored ellipsoids" />
    </outputs>
    <tests>
        <test>
        </test>
    </tests>
    <help>
**What it does**

The diffusion tensor model is a model that describes the diffusion within a voxel. It demonstrates
the utility of diffusion MRI in characterizing the micro-structure of white matter tissue and of the
biophysical properties of tissue, inferred from local diffusion properties.
-----

**Options**

    </help>
    <citations>
    </citations>
</tool>