Re: [Freesurfer] recon-all -s SOME_SUBJECT exited with ERRORS

Nov 2019, Emanuel Alvaredo wrote: > > > > > External Email - Use Caution > > > > Hi Bruce! Thanks for answer!! > > * The command line is > > > > recon-all -s SUBJECT_NAME -i > > > /patients/SUBJECT_NAME/2_COGNITI

Re: [Freesurfer] recon-all -s SOME_SUBJECT exited with ERRORS

fault (core dumped) exec $JOB >> $LOG 2>&1 Waiting for PID 2781 of (2778 2781) to complete... Any idea? Thanks in advance! Emanuel On Tue, Oct 1, 2019 at 5:07 PM Emanuel Alvaredo wrote: > Hello FreeSurfer Developers, > > I am running de following command >

Re: [Freesurfer] Custom Colormap

; Ruopeng > On 4/1/19 10:40 AM, Emanuel Alvaredo wrote: > > Thanks Bruce, Do you know what is the command line option? > Thanks! > Emanuel > > > On Mon, Apr 1, 2019 at 11:34 AM Bruce Fischl > wrote: > >> I see. You can give freeview a custom lookup table on the co

Re: [Freesurfer] Custom Colormap

t; On Mon, 1 Apr 2019, Emanuel Alvaredo wrote: > > > > > External Email - Use Caution > > > > Thanks for the answer Bruce. > > Is For segmentations. I have run freesurfer for 100 nomal patients. I > have calculated > > standard desviation and mean, then

Re: [Freesurfer] Custom Colormap

gt; changing the color of existing parcels/segments? If so you can just > import it in freeview > cheers > Bruce > > On Mon, 1 Apr 2019, Emanuel Alvaredo wrote: > > > > > External Email - Use Caution > > > > Hello! > > I would like to

[Freesurfer] Custom Colormap

External Email - Use Caution Hello! I would like to ask you about customs colormaps. I have created my own FreeSurferColorLUT.txt and I would like configure the color map using command line. Is it possible? Thanks in advance. Emanuel

Re: [Freesurfer] Error in running make_average_subject

Bruce Fischl wrote: > Hi Emanuel, > > can you include the full command line and output? > > cheers > Bruce > On Wed, 12 Dec 2018, > Emanuel Alvaredo wrote: > > > > > External Email - Use Caution > > > > Thanks for your answer Douglas. I re

Re: [Freesurfer] Error in running make_average_subject

was restored. I just put this file there: > > > https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/make_average_surface > > Copy it to $FREESURFER_HOME/bin. Let me know how it goes > > > On 12/10/18 12:48 PM, Emanuel Alvaredo wrote: > > E

Re: [Freesurfer] Error in running make_average_subject

the full command you ran and output of it if you want > us to be able to help you > > cheers > Bruce > On Fri, 7 Dec 2018, Emanuel Alvaredo wrote: > > > > > External Email - Use Caution > > > > Hello!, I am getting the following error using the > co

[Freesurfer] Error in running make_average_subject

External Email - Use Caution Hello!, I am getting the following error using the command make_average_subject mri/norm.mgz: could not load norm volume from (null) I have found this page with a path for de issue

Re: [Freesurfer] Freeview: Load multiples overlays for one surface

hreshold=1,5 > > Ruopeng > > On 09/07/2018 03:11 PM, Emanuel Alvaredo wrote: > > External Email - Use Caution > > Hi! I would like from command line to open one surface with multiple > ovelays. For example, intead of this > > ..-f surf/lh.inflated:overlay

[Freesurfer] Freeview: Load multiples overlays for one surface

External Email - Use Caution Hi! I would like from command line to open one surface with multiple ovelays. For example, intead of this ..-f surf/lh.inflated:overlay=surf/lh.sulc surf/lh.inflated:overlay=surf/lh.thickness:overlay_threshold=1,5 I would like to do something