External Email - Use Caution
Dear Douglas,
thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
Please include previous emails so that I know what you are asking about. I get a lot of emails:)
On 05/03/2018 05:07 AM, Lucia Billeci wrote:
Dear Douglas,
thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
External Email - Use Caution
Sorry Douglas,
hereafter you can find previous emails
Regards Lucia
Dear Douglas, thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
mri_surfcluster only works for surfaces (that's what the "surf" in the name means). If you want the centroid of a volume ROI use https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_segcentroids https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_segcentroids
Dear Bruce,
the ROI appears correct in freeview. However I have a problem in the following step, i.e. obtain the centroid of the ROi.
I used the following command:
mri_surfcluster --in /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness --clabel ./tests_label/sub/lh.amygdala.label --sum ./tests_label/sum/sum.lh.amygdala --centroid --thmin 0 --hemi lh --subject fsaverage —nofixmni
However it doesn’t work for subcortical label files (it works with cortical ones). I have the following output and the command doesn’t produce the file sum.lh.amygdala:
thsign = abs, id = 0 version $Id: mri_surfcluster.c,v 1.57.2.3 2016/11/17 18:19:42 zkaufman Exp $ hemi = lh srcid = /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness srcsubjid = fsaverage srcsurf = white srcframe = 0 thsign = abs thmin = 0 thmax = -1 fdr = -1 minarea = 0 xfmfile = talairach.xfm clabelfile = ./tests_label/sub/lh.amygdala.label clabelinv = 0 nth = -1 sumfile = ./tests_label/sum/sum.lh.amygdala subjectsdir = /Applications/freesurfer/subjects FixMNI = 0 Loading clabel ./tests_label/sub/lh.amygdala.label. Found 1941 points in clabel. ------------- XFM matrix (RAS2RAS) --------------- /Applications/freesurfer/subjects/fsaverage/mri/transforms/talairach.xfm 1.00000 0.00000 0.00000 0.00000; 0.00000 1.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; ---------------------------------------------------- Reading source surface /Applications/freesurfer/subjects/fsaverage/surf/lh.white Done reading source surface Computing metric properties Loading source values /Applications/freesurfer/bin/mri_surfcluster: line 3: 2828 Bus error: 10 mri_surfcluster.bin "$@"
Maybe because lh.thickness is only for cortical regions? In this case, how can I obtain centroids of subcortical ROIs?
Thanks Regards Lucia
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Dear Brouce,
thanks again. I would like exactly how to set mri_vol2label for subcortical regions as the way I used give me all the values of the first column equal to -1. This is a problem when I want to obtain obtain the centroid of the ROI using mri_surfcluster as I get an empty file.
Hope Doug can help me.
Thanks Lucia
Hi Lucia
can you cc the list so others can answer? You can't get a surface-based label for a subcortical region as they aren't on (or close) to the surrface. I think mri_vol2label is the right binary to create a volumetric ROI for each one, but Doug will know cheers Bruce
Dear Freesurfer Experts,
I want to use mri_vol2label to obtain labels for subcortical regions.
I tried the following command:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label
However I get the same vertex index for all the row, equal to -1:
-1 -14.000 -92.000 -31.000 0.0000000000 -1 -17.000 -92.000 -31.000 0.0000000000 -1 -18.000 -92.000 -31.000 0.0000000000
This happens for all the regions I selected.
I have also tried adding the option —surf, as you suggested in previous posts:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label --surf fsaverage lh white
But I have the following error message:
ERROR: dim mismatch between surface (163842) and input (16777216)
Could you please help me?
Thanks a lot in advance Best regards Lucia Billeci _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
On 3 May 2018, at 17:53, Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Please include previous emails so that I know what you are asking about. I get a lot of emails:)
On 05/03/2018 05:07 AM, Lucia Billeci wrote:
Dear Douglas,
thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
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.
Something like
mri_segcentroid --i aseg.mgz --o centroids.dat --ctab-default
On 05/05/2018 01:06 PM, Lucia Billeci wrote:
Sorry Douglas,
hereafter you can find previous emails
Regards Lucia
Dear Douglas, thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
mri_surfcluster only works for surfaces (that's what the "surf" in the name means). If you want the centroid of a volume ROI use https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_segcentroids
Dear Bruce,
the ROI appears correct in freeview. However I have a problem in the following step, i.e. obtain the centroid of the ROi.
I used the following command:
mri_surfcluster --in /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness --clabel ./tests_label/sub/lh.amygdala.label --sum ./tests_label/sum/sum.lh.amygdala --centroid --thmin 0 --hemi lh --subject fsaverage —nofixmni
However it doesn’t work for subcortical label files (it works with cortical ones). I have the following output and the command doesn’t produce the file sum.lh.amygdala:
thsign = abs, id = 0 version $Id: mri_surfcluster.c,v 1.57.2.3 2016/11/17 18:19:42 zkaufman Exp $ hemi = lh srcid = /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness srcsubjid = fsaverage srcsurf = white srcframe = 0 thsign = abs thmin = 0 thmax = -1 fdr = -1 minarea = 0 xfmfile = talairach.xfm clabelfile = ./tests_label/sub/lh.amygdala.label clabelinv = 0 nth = -1 sumfile = ./tests_label/sum/sum.lh.amygdala subjectsdir = /Applications/freesurfer/subjects FixMNI = 0 Loading clabel ./tests_label/sub/lh.amygdala.label. Found 1941 points in clabel. ------------- XFM matrix (RAS2RAS) --------------- /Applications/freesurfer/subjects/fsaverage/mri/transforms/talairach.xfm 1.00000 0.00000 0.00000 0.00000; 0.00000 1.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 0.00000 0.00000 1.00000;
Reading source surface /Applications/freesurfer/subjects/fsaverage/surf/lh.white Done reading source surface Computing metric properties Loading source values /Applications/freesurfer/bin/mri_surfcluster: line 3: 2828 Bus error: 10 mri_surfcluster.bin "$@"
Maybe because lh.thickness is only for cortical regions? In this case, how can I obtain centroids of subcortical ROIs?
Thanks Regards Lucia
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Dear Brouce,
thanks again. I would like exactly how to set mri_vol2label for subcortical regions as the way I used give me all the values of the first column equal to -1. This is a problem when I want to obtain obtain the centroid of the ROI using mri_surfcluster as I get an empty file.
Hope Doug can help me.
Thanks Lucia
Hi Lucia
can you cc the list so others can answer? You can't get a surface-based label for a subcortical region as they aren't on (or close) to the surrface. I think mri_vol2label is the right binary to create a volumetric ROI for each one, but Doug will know cheers Bruce
Dear Freesurfer Experts,
I want to use mri_vol2label to obtain labels for subcortical regions.
I tried the following command:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label
However I get the same vertex index for all the row, equal to -1:
-1 -14.000 -92.000 -31.000 0.0000000000 -1 -17.000 -92.000 -31.000 0.0000000000 -1 -18.000 -92.000 -31.000 0.0000000000
This happens for all the regions I selected.
I have also tried adding the option —surf, as you suggested in previous posts:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label --surf fsaverage lh white
But I have the following error message:
ERROR: dim mismatch between surface (163842) and input (16777216)
Could you please help me?
Thanks a lot in advance Best regards Lucia Billeci _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
On 3 May 2018, at 17:53, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Please include previous emails so that I know what you are asking about. I get a lot of emails:)
On 05/03/2018 05:07 AM, Lucia Billeci wrote:
Dear Douglas,
thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
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.
External Email - Use Caution
Thank you. However I don’t know how to open the file .dms you sent me. I have tried several ways but unsuccessfully. Could you please tell me how to open files with this extension or maybe send me the file with another extension?
Best regards Lucia
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
On 7 May 2018, at 19:32, Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Something like
mri_segcentroid --i aseg.mgz --o centroids.dat --ctab-default
On 05/05/2018 01:06 PM, Lucia Billeci wrote:
Sorry Douglas,
hereafter you can find previous emails
Regards Lucia
Dear Douglas, thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
mri_surfcluster only works for surfaces (that's what the "surf" in the name means). If you want the centroid of a volume ROI use https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_segcentroids
Dear Bruce,
the ROI appears correct in freeview. However I have a problem in the following step, i.e. obtain the centroid of the ROi.
I used the following command:
mri_surfcluster --in /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness --clabel ./tests_label/sub/lh.amygdala.label --sum ./tests_label/sum/sum.lh.amygdala --centroid --thmin 0 --hemi lh --subject fsaverage —nofixmni
However it doesn’t work for subcortical label files (it works with cortical ones). I have the following output and the command doesn’t produce the file sum.lh.amygdala:
thsign = abs, id = 0 version $Id: mri_surfcluster.c,v 1.57.2.3 2016/11/17 18:19:42 zkaufman Exp $ hemi = lh srcid = /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness srcsubjid = fsaverage srcsurf = white srcframe = 0 thsign = abs thmin = 0 thmax = -1 fdr = -1 minarea = 0 xfmfile = talairach.xfm clabelfile = ./tests_label/sub/lh.amygdala.label clabelinv = 0 nth = -1 sumfile = ./tests_label/sum/sum.lh.amygdala subjectsdir = /Applications/freesurfer/subjects FixMNI = 0 Loading clabel ./tests_label/sub/lh.amygdala.label. Found 1941 points in clabel. ------------- XFM matrix (RAS2RAS) --------------- /Applications/freesurfer/subjects/fsaverage/mri/transforms/talairach.xfm 1.00000 0.00000 0.00000 0.00000; 0.00000 1.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 0.00000 0.00000 1.00000;
Reading source surface /Applications/freesurfer/subjects/fsaverage/surf/lh.white Done reading source surface Computing metric properties Loading source values /Applications/freesurfer/bin/mri_surfcluster: line 3: 2828 Bus error: 10 mri_surfcluster.bin "$@"
Maybe because lh.thickness is only for cortical regions? In this case, how can I obtain centroids of subcortical ROIs?
Thanks Regards Lucia
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Dear Brouce,
thanks again. I would like exactly how to set mri_vol2label for subcortical regions as the way I used give me all the values of the first column equal to -1. This is a problem when I want to obtain obtain the centroid of the ROI using mri_surfcluster as I get an empty file.
Hope Doug can help me.
Thanks Lucia
Hi Lucia
can you cc the list so others can answer? You can't get a surface-based label for a subcortical region as they aren't on (or close) to the surrface. I think mri_vol2label is the right binary to create a volumetric ROI for each one, but Doug will know cheers Bruce
Dear Freesurfer Experts,
I want to use mri_vol2label to obtain labels for subcortical regions.
I tried the following command:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label
However I get the same vertex index for all the row, equal to -1:
-1 -14.000 -92.000 -31.000 0.0000000000 -1 -17.000 -92.000 -31.000 0.0000000000 -1 -18.000 -92.000 -31.000 0.0000000000
This happens for all the regions I selected.
I have also tried adding the option —surf, as you suggested in previous posts:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label --surf fsaverage lh white
But I have the following error message:
ERROR: dim mismatch between surface (163842) and input (16777216)
Could you please help me?
Thanks a lot in advance Best regards Lucia Billeci _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
On 3 May 2018, at 17:53, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu<mailto:dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu>> wrote:
Please include previous emails so that I know what you are asking about. I get a lot of emails:)
On 05/03/2018 05:07 AM, Lucia Billeci wrote:
Dear Douglas,
thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it<mailto:lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it> <mailto:lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it> _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
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.
Did I send a .dms file? It should just be a binary
On 05/08/2018 04:25 AM, Lucia Billeci wrote:
Thank you. However I don’t know how to open the file .dms you sent me. I have tried several ways but unsuccessfully. Could you please tell me how to open files with this extension or maybe send me the file with another extension?
Best regards Lucia
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
On 7 May 2018, at 19:32, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Something like
mri_segcentroid --i aseg.mgz --o centroids.dat --ctab-default
On 05/05/2018 01:06 PM, Lucia Billeci wrote:
Sorry Douglas,
hereafter you can find previous emails
Regards Lucia
Dear Douglas, thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
mri_surfcluster only works for surfaces (that's what the "surf" in the name means). If you want the centroid of a volume ROI use https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_segcentroids
Dear Bruce,
the ROI appears correct in freeview. However I have a problem in the following step, i.e. obtain the centroid of the ROi.
I used the following command:
mri_surfcluster --in /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness --clabel ./tests_label/sub/lh.amygdala.label --sum ./tests_label/sum/sum.lh.amygdala --centroid --thmin 0 --hemi lh --subject fsaverage —nofixmni
However it doesn’t work for subcortical label files (it works with cortical ones). I have the following output and the command doesn’t produce the file sum.lh.amygdala:
thsign = abs, id = 0 version $Id: mri_surfcluster.c,v 1.57.2.3 2016/11/17 18:19:42 zkaufman Exp $ hemi = lh srcid = /Applications/freesurfer/subjects/fsaverage/surf/lh.thickness srcsubjid = fsaverage srcsurf = white srcframe = 0 thsign = abs thmin = 0 thmax = -1 fdr = -1 minarea = 0 xfmfile = talairach.xfm clabelfile = ./tests_label/sub/lh.amygdala.label clabelinv = 0 nth = -1 sumfile = ./tests_label/sum/sum.lh.amygdala subjectsdir = /Applications/freesurfer/subjects FixMNI = 0 Loading clabel ./tests_label/sub/lh.amygdala.label. Found 1941 points in clabel. ------------- XFM matrix (RAS2RAS) --------------- /Applications/freesurfer/subjects/fsaverage/mri/transforms/talairach.xfm 1.00000 0.00000 0.00000 0.00000; 0.00000 1.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 0.00000 0.00000 1.00000;
Reading source surface /Applications/freesurfer/subjects/fsaverage/surf/lh.white Done reading source surface Computing metric properties Loading source values /Applications/freesurfer/bin/mri_surfcluster: line 3: 2828 Bus error: 10 mri_surfcluster.bin "$@"
Maybe because lh.thickness is only for cortical regions? In this case, how can I obtain centroids of subcortical ROIs?
Thanks Regards Lucia
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Hi Lucia
the first column being -1 means that it is not mapped to the surface, so is correct in your (subcortical) case. Try loading the label as an ROI in freeview and see if it is correct
cheers Bruce
Dear Brouce,
thanks again. I would like exactly how to set mri_vol2label for subcortical regions as the way I used give me all the values of the first column equal to -1. This is a problem when I want to obtain obtain the centroid of the ROI using mri_surfcluster as I get an empty file.
Hope Doug can help me.
Thanks Lucia
Hi Lucia
can you cc the list so others can answer? You can't get a surface-based label for a subcortical region as they aren't on (or close) to the surrface. I think mri_vol2label is the right binary to create a volumetric ROI for each one, but Doug will know cheers Bruce
Dear Freesurfer Experts,
I want to use mri_vol2label to obtain labels for subcortical regions.
I tried the following command:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label
However I get the same vertex index for all the row, equal to -1:
-1 -14.000 -92.000 -31.000 0.0000000000 -1 -17.000 -92.000 -31.000 0.0000000000 -1 -18.000 -92.000 -31.000 0.0000000000
This happens for all the regions I selected.
I have also tried adding the option —surf, as you suggested in previous posts:
mri_vol2label --c $SUBJECTS_DIR/fsaverage/mri/aseg.mgz --id 8 --l ./tests_label/8.label --surf fsaverage lh white
But I have the following error message:
ERROR: dim mismatch between surface (163842) and input (16777216)
Could you please help me?
Thanks a lot in advance Best regards Lucia Billeci _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail: lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
On 3 May 2018, at 17:53, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu> wrote:
Please include previous emails so that I know what you are asking about. I get a lot of emails:)
On 05/03/2018 05:07 AM, Lucia Billeci wrote:
Dear Douglas,
thanks a lot. This can solve my problem. Could you please give my some explanations about how to open and use the tool?
Thanks Regards Lucia
Dr. Lucia Billeci, PhD Institute of Clinical Physiology (IFC) National Research Council (CNR) via Moruzzi 1, 56124, Pisa, Italy e-mail:lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.itmailto:lucia.billeci@ifc.cnr.it mailto:lucia.billeci@ifc.cnr.it _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Douglas N. Greve -
Lucia Billeci