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@m-reuter m-reuter commented Jun 1, 2023

closes #324

@m-reuter m-reuter merged commit c951b24 into stable Jun 1, 2023
@m-reuter m-reuter deleted the hotfix-nofst1-lowercase branch June 1, 2023 06:46
@LeHenschel
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So if you want to do the fix this way around (changing it in recon_surf.sh), the documentation needs to be updated as well. Both in recon_surf.sh and run_fastsurfer.sh the flag is described with upper case. Otherwise, it would have been easier to change it in run_fastsurfer.sh because this is the only place where the T was lower case.

@m-reuter
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m-reuter commented Jun 1, 2023

I thought, when we check for parameters, we always convert the input to lower case and then compare the strings in lower case format. That is why I changed it like this.

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Ok, I see. Then it makes sense. I was not aware of the new changes there.

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no_fs_T1 not passed correctly between run_fastsurfer and recon-surf

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