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Fix mask output filename issues when '.nii.gz' is not included in out_fname #53

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Fix mask output filename issues when '.nii.gz' is not included in out_fname #53

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Commits on May 1, 2024

  1. Update run.py 

    The current run_hd_bet function has a hard-coded string filter on the output mask name to append _mask.nii.gz to the output mask (line 78: mask_fname = out_fname[:-7] + "_mask.nii.gz"). However, if the user doesn't include the '.nii.gz' extension in the out_fname parameter, this will cause issues. For example, if out_fname is set to 'hd_bet_output', the resulting mask name will be 'hd_bet'.

This update fixes this small bug and should work in both cases (i.e. where a user includes the '.nii.gz' extension, and those when the user doesn't include the '.nii.gz' extension).
    @bacaron
    bacaron authored May 1, 2024
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