Re: [Freesurfer] orientation problem when converting from SPM .nii format to bshort

2008-07-07 Thread Doug Greve
That is probably just the way they are oriented in the nii file. BTW, why are you using bshort? I'm trying to push people into using nii. doug Leila Reddy wrote: Hi, I am trying to convert SPM5 .nii files into bshort and I used the following command: mri_concat fkoch-0007*.nii --o bol

Re: Re: [Freesurfer] path error on cluster super-computer

2008-07-07 Thread Pedro Paulo de Magalhães Oliveira Junior
I think you can change tmpdir in bin/mri_nu_correct.mni But first check if you are setting the variables correctly: FREESURFER_HOME and executing source SetUpFreeSurfer.sh 2008/7/7 Woo-Suk, Tae <[EMAIL PROTECTED]>: > The super-user of super-computer did not give me the writing permission for >

[Freesurfer] "Deflate compression support is not configured"

2008-07-07 Thread Mark A. Pinsk
Similar to a thread below, I'm having trouble running mris_make_template. First time I'm trying mris_make_template. On a Mac Pro, running 10.5.4, running FS 4.0.5, installed libtiff from darwinports mris_make_template rh sphere monk monk1.tif . monk1.tif: Deflate compression support is

Re: Re: Re: [Freesurfer] path error on cluster super-computer

2008-07-07 Thread Woo-Suk, Tae
.Bold { font-weight: bold; } .Title { font-weight: bold; font-size: 18px; color: #cc3300; } .Code { border: #8b4513 1px solid; padding-right: 5px; padding-left: 5px;color: #66; font-family: 'Courier New' , Monospace;background-color: #ff9933; } Thanks Pedro Paulo de Magalh?es Oliveira Junior!

[Freesurfer] volume of Heschl's gyrus

2008-07-07 Thread Woo-Suk, Tae
.Bold { font-weight: bold; } .Title { font-weight: bold; font-size: 18px; color: #cc3300; } .Code { border: #8b4513 1px solid; padding-right: 5px; padding-left: 5px;color: #66; font-family: 'Courier New' , Monospace;background-color: #ff9933; } HiWhat is the exact term of heschl's gyrus in th