We are using MAC OS 10.9.5 Mavericks and freesurfer-Darwin-leopard- i686-stable-pub-v5.1.0
On Thursday, July 30, 2015, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > 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 >> >> >> >> >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> The information in this e-mail is intended only for the person to whom it >> is >> addressed. If you believe this e-mail was sent to you in error and the >> e-mail >> contains patient information, please contact the Partners Compliance >> HelpLine at >> http://www.partners.org/complianceline . If the e-mail was sent to you in >> error >> but does not contain patient information, please contact the sender and >> properly >> dispose of the e-mail. >> >> >> >>
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