Hi Caspar
the dev version of label2label doesn't have this problem. If you let us
know your hardware/software environment Zeke can get you a new binary that
should fix this issue
cheers
Bruce
On Thu, 30 Jul
2015, Caspar M. Schwiedrzik wrote:
Hi Bruce and Doug,
thanks for looking into this and sorry for the delay.
The command line we are using is:
mri_label2label
--srclabel/Volumes/Macintosh_HD/Applications/freesurfer/subjects/y$1/label/lh.v1.predict0p
8.label --srcsubject y$1
--trglabel/Volumes/Macintosh_HD/Applications/freesurfer/subjects/yx$1/label/yx$1_av1_lh_tp
2.label --trgsubject yx$1 --regmethod surface --hemi lh
We have several anatomies from the same subject, acquired on different
occasions.
We defined labels based on results of an fMRI experiment, and tried to use
mri_label2label to map them within subjects from one anatomy to another. As a
control, we also wanted to map the Hinds V1 from one anatomy to another, but
this
is where we ran into these holes.
We will make an example subject available for debugging later today.
Thanks! Caspar
2015-07-24 12:33 GMT-04:00 Douglas Greve <gr...@nmr.mgh.harvard.edu>:
what is your command line? What do you mean by one anatomy to
another?
On 7/24/15 9:26 AM, Caspar M. Schwiedrzik wrote:
---------- Forwarded message ----------
From: Caspar M. Schwiedrzik <cschwie...@rockefeller.edu>
Date: Thursday, July 16, 2015
Subject: problem with mri_label2label - large amount of holes
To: "Freesurfer@nmr.mgh.harvard.edu"
<freesurfer@nmr.mgh.harvard.edu>
Hi!
We are doing some analyses in which we map custom labels from one
anatomy to another, within subjects. As a control, we also tried to
map anatomically defined V1s according to the method by Hinds within
subject from one anatomy to another. However, as you can see in the
attachment, there are very many holes in the labels after using
mri_label2label. This does not happen with smaller labels. Why is
this happening and is there a solution?
Thanks, Caspar
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