Mercurial > repos > greg > diffusion_signal_reconstruction

comparison diffusion_signal_reconstruction.xml @ 8:0c3f09c848be draft

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author greg
date Thu, 30 Nov 2017 08:29:59 -0500
parents 1ebe4c9fab2e
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7:1ebe4c9fab2e 8:0c3f09c848be
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.13.0">dipy</requirement> 4 <requirement type="package" version="0.13.0">dipy</requirement>
5 </requirements> 5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
7 python '$__tool_directory__/diffusion_signal_reconstruction.py' 7 python '$__tool_directory__/diffusion_signal_reconstruction.py'
8 --drmi_dataset $drmi_dataset 8 --input $input
9 --input_extra_files_path '$input.extra_files_path'
9 --output_nifti1_evecs '$output_nifti1_evecs' 10 --output_nifti1_evecs '$output_nifti1_evecs'
11 --output_nifti1_evecs_files_path '$output_nifti1_evecs.files_path'
10 --output_nifti1_fa '$output_nifti1_fa' 12 --output_nifti1_fa '$output_nifti1_fa'
13 --output_nifti1_fa_files_path '$output_nifti1_fa.files_path'
11 --output_nifti1_md '$output_nifti1_md' 14 --output_nifti1_md '$output_nifti1_md'
15 --output_nifti1_md_files_path '$output_nifti1_md.files_path'
12 --output_nifti1_rgb '$output_nifti1_rgb' 16 --output_nifti1_rgb '$output_nifti1_rgb'
17 --output_nifti1_rgb_files_path '$output_nifti1_rgb.files_path'
13 --output_png_ellipsoids '$output_png_ellipsoids' 18 --output_png_ellipsoids '$output_png_ellipsoids'
14 --output_png_middle_axial_slice '$output_png_middle_axial_slice' 19 --output_png_middle_axial_slice '$output_png_middle_axial_slice'
15 --output_png_odfs '$output_png_odfs' 20 --output_png_odfs '$output_png_odfs'
16 &>/dev/null 21 &>/dev/null
17 ]]></command> 22 ]]></command>
18 <inputs> 23 <inputs>
19 <param name="drmi_dataset" type="select" label="dRMI dataset"> 24 <param name="input" type="data" format="nifti1" label="dRMI dataset"/>
20 <option value="stanford_hardi" selected="true">stanford_hardi</option>
21 <option value="sherbrooke_3shell">sherbrooke_3shell</option>
22 </param>
23 </inputs> 25 </inputs>
24 <outputs> 26 <outputs>
25 <data name="output_nifti1_evecs" format="nifti1" label="${tool.name}: eigen vectors" /> 27 <data name="output_nifti1_evecs" format="nifti1" label="${tool.name}: eigen vectors" />
26 <data name="output_nifti1_fa" format="nifti1" label="${tool.name}: fractional anisotropy" /> 28 <data name="output_nifti1_fa" format="nifti1" label="${tool.name}: fractional anisotropy" />
27 <data name="output_nifti1_md" format="nifti1" label="${tool.name}: mean diffusivity" /> 29 <data name="output_nifti1_md" format="nifti1" label="${tool.name}: mean diffusivity" />