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force recomputation #25
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Chris and I had discussed this when I added the This would change the default behavior to skipping subjects if the subject directory exists unless force-recompute is present, but if you want to run e.g., autorecon3, you would also have to set force-recompute, which may be confusing, but could be explained. Chris, what do you think? An alternative could be a On further reviewing the code, I believe the |
That's probably on purpose. If only parts of |
well, the default is all, but what if you need to correct the
cross-sectional segmentation? I suppose in that case you are just running
the single participant, but I think with the current control logic, that's
the command that would be run...
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Alexander Li Cohen, M.D., Ph.D.
E-mail: Alexander.Cohen2@childrens.harvard.edu (Medical/Science Email)
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On Tue, Jan 31, 2017 at 12:44 PM, Franz Liem ***@***.***> wrote:
On further reviewing the code, I believe the stagesoptions is missing from
the first round run.py lines 158 and 162, which also needs to be fixed.
That's probably on purpose. If only parts of recon-all -all is run at the
cross-sectional phase, it think it is not possible to create a base image.
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Ahoi hoi @fliem and @alexlicohen, was there any further discussion re this? Cheers, Peer |
I think we can go ahead and close the issue.
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On Dec 16, 2020, at 9:40 AM, Peer Herholz ***@***.***> wrote:
Ahoi hoi @fliem <https://github.com/fliem> and @alexlicohen <https://github.com/alexlicohen>,
was there any further discussion re this?
Otherwise, we could close this issue.
Cheers, Peer
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Ok, thx @alexlicohen! |
{fsid}/scripts/IsRunning.lh+rh
file. If it is there we remove the folder and start from scratch.{fid}
folder. If that's the case, we run theresume_cmd
. If the recon-all has been completed, that seems to recompute everything.How about adding an input argument that needs to be set to recompute everything (like
--force-recompute
)? That wayThe text was updated successfully, but these errors were encountered: