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}]] [-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}]
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.