.. _scil_viz_bundle_screenshot_mni:

scil_viz_bundle_screenshot_mni
==============================

::

	usage: __main__.py [-h] [--target_template TARGET_TEMPLATE]
	                   [--local_coloring | --uniform_coloring R G B | --reference_coloring COLORBAR]
	                   [--roi ROI [ROI ...]] [--right]
	                   [--anat_opacity ANAT_OPACITY]
	                   [--output_suffix OUTPUT_SUFFIX] [--out_dir OUT_DIR]
	                   [-v [{DEBUG,INFO,WARNING,ERROR}]] [-f]
	                   in_bundle in_anat
	
	Register bundle to a template for screenshots using a reference.
	The template can be any MNI152 (any resolution, cropped or not)
	If your in_anat has a skull, select a MNI152 template with a skull and
	vice-versa.
	
	If the bundle is already in MNI152 space, do not use --target_template.
	
	Axial, coronal and sagittal slices are captured.
	Sagittal can be capture from the left (default) or the right.
	
	For the --roi argument: If 1 value is provided, the ROI will be white,
	if 4 values are provided, the ROI will be colored with the RGB values
	provided, if 5 values are provided, it is RGBA (values from 0-255).
	
	positional arguments:
	  in_bundle             Path of the input bundle.
	  in_anat               Path of the reference file (.nii or nii.gz).
	
	options:
	  -h, --help            show this help message and exit
	  --target_template TARGET_TEMPLATE
	                        Path to the target MNI152 template for registration. If in_anat has a skull, select a MNI152 template with a skull and vice-versa.
	  --local_coloring      Color streamlines using local segments orientation.
	  --uniform_coloring R G B
	                        Color streamlines with uniform coloring.
	  --reference_coloring COLORBAR
	                        Color streamlines with reference coloring (0-255).
	  --roi ROI [ROI ...]   Path to a ROI file (.nii or nii.gz).
	  --right               Take screenshot from the right instead of the left for the sagittal plane.
	  --anat_opacity ANAT_OPACITY
	                        Set the opacity for the anatomy, use 0 for complete transparency, 1 for opaque. [0.3]
	  --output_suffix OUTPUT_SUFFIX
	                        Add a suffix to the output, else the axis name is used.
	  --out_dir OUT_DIR     Put all images in a specific directory.
	  -v [{DEBUG,INFO,WARNING,ERROR}]
	                        Produces verbose output depending on the provided level. 
	                        Default level is warning, default when using -v is info.
	  -f                    Force overwriting of the output files.
	
	2.2.2