Re: [Freesurfer] Magnitude of group difference

2015-09-18 Thread Douglas N Greve
On 09/18/2015 02:37 PM, pablo najt wrote: > Hello Doug, > Below you suggested that I can calculate percent difference if I > create a contrast of group1 vs 0 and same group2, for cortical > thickness. Does this applies to Area and Area.Pial as well? You mean to compute the percent diff between

Re: [Freesurfer] Magnitude of group difference

2015-09-18 Thread pablo najt
Hello Doug, Below you suggested that I can calculate percent difference if I create a contrast of group1 vs 0 and same group2, for cortical thickness. Does this applies to Area and Area.Pial as well? About my contrasts for my qdec analysis I have two levels two covariates So my contrasts look:

[Freesurfer] Resolved - RE: Error downloading fs dataset

2015-09-18 Thread pablo najt
Thanks, Realized that using FAT32 there is a file size for individual file of 4GB. So downloading to my tower and will move after unzipping. Thanks P From: pablon...@hotmail.com To: freesurfer@nmr.mgh.harvard.edu Date: Fri, 18 Sep 2015 16:18:52 + Subject: Re: [Freesurfer] Error downloading fs

Re: [Freesurfer] Error downloading fs dataset

2015-09-18 Thread pablo najt
Thanks Lee, I thought about this but this shouldn't be a problem since I am storing this in a hard drive with 2.54 TB free. Could it be that by default creating a folder will not allow more than 4GB? Do you suggest any tips for checking this? Thanks! Pablo Date: Fri, 18 Sep 2015 12:06:03 -0400 F

Re: [Freesurfer] Error downloading fs dataset

2015-09-18 Thread Lee Tirrell
Hi Pablo, Do you have enough space on your disk? It seems that it stopped downloading after 4GB of the 10.6GB file. The curl (23) error means: "Write error. Curl couldn't write data to a local filesystem or similar." Best, Lee On Fri, 18 Sep 2015, pablo najt wrote: Dear FS experts and us

[Freesurfer] Error downloading fs dataset

2015-09-18 Thread pablo najt
Dear FS experts and users, I am coming across an error -see below, when trying to download buckner dataset from the terminal. Any tips as to how to overcome this would be greatly appreciated. Thanks! Pablo [localhost:/Volumes/NEW_VOLUME/FS_dataset] % curl -O ftp://surfer.nmr.mgh.harvard.edu

Re: [Freesurfer] fast_selxavg3() failed\n

2015-09-18 Thread Douglas N Greve
when you make the analysis (step 4), specify the taskreg without the .dat (ie, MRS_MASK, not MRS_MASK.dat) On 09/17/2015 06:03 PM, std...@virgilio.it wrote: > Hi list, > > I'm performing FS-FAST on rsfMRI. > The seed is MRS voxel. > I have run: > > 1-mri_convert MRS_MASK.nii.gz $SUBJECTS_DIR/MR

Re: [Freesurfer] Can MRIread function read .mgz file

2015-09-18 Thread Douglas N Greve
Yes, that is probably the reason. I don't know windows that well, but if you can get a version of zcat and put it in your path, it may work. Alternatively, you can unzip the file to be file.mgh instead of file.mgz and it should work. On 09/18/2015 04:13 AM, chenhf_uestc wrote: > Hi, Bruce > I m

Re: [Freesurfer] Can MRIread function read .mgz file

2015-09-18 Thread chenhf_uestc
Hi, Bruce I may find the reason. Actually, I can load the file into freeview. My colleagure can read this file using MRIread on Linux system but I failed using the Windows system. In the MRIread function, there are ' unix(sprintf('zcat %s > %s', fname, new_fname)) ;' and 'unix(sprintf('rm %s'