10 Jul
2020
10 Jul
'20
10:30 a.m.
I don't know what you mean by 9001 and 9002 masks
On 7/9/2020 3:16 PM, Anja Samardzija wrote:
External Email - Use Caution
Hi,
Thank you! That worked.
I was also wondering if you can help me in getting the 9001 and 9002 masks. I tried to replicate the work from an archived post but had no luck.
Thanks, Anja
On Thu, Jul 9, 2020 at 2:51 PM Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Sorry, gave you the wrong command line, try this mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 subject lh ../surf/lh.sphere.reg $FREESURFER_HOME/average/lh.atlas2005_simple.gcs ../label/lh.aparc.a2005s.annot On 7/9/2020 2:12 PM, Anja Samardzija wrote:External Email - Use Caution Hi, Thanks for the help! When I run the suggested commands I get redirected to the help output of the mris_ca_label. The command does not execute and looking at the mris_ca_label help page it seems as though the flags that you have suggested do not exist for mris_ca_label...Please let me know if you have any suggestions. Thanks, Anja On Wed, Jul 8, 2020 at 11:08 AM Douglas N. Greve <dgreve@mgh.harvard.edu <mailto:dgreve@mgh.harvard.edu>> wrote: That file is no longer created by recon-all. But you can recreate it. cd $SUBJECTS_DIR/subject/label mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 subject lh $FREESURFER_HOME/average/lh.atlas2005_simple.gcs ../label/lh.aparc.a2005s.annot And the same for the rh On 7/7/2020 6:17 PM, Anja Samardzija wrote:External Email - Use Caution Hello, I am trying to run mri_aparc2aseg with the flag --a2005s on a subject that I previously ran recon-all --all on. When trying to run mri_aparc2aseg with --a2005s I get the following error: could not read annot file 010/label/lh.aparc.a2005s.annot No such file or directory ERROR: MRISreadAnnotation() failed 010/label/lh.aparc.a2005s.annot. How do I solve this issue (get the lh.aparc.a2005s.annot file)? Thank you, Anja _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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