Print

Print


Hi Rodrigo,

Your FSL shell configuration is incomplete. You should be able to fix it by adding this line to your ~/.bashrc file (after the $FSLDIR definition):

. $FSLDIR/etc/fslconf/fsl.sh 

Cheers,

Paul



On 26 July 2016 at 18:59, Rodrigo Perea <[log in to unmask]> wrote:
Here is the env command:

SSH_TTY=/dev/ttys000
USER=nexmac14
LSCOLORS=ExFxCxDxBxegedabagacad
PATH=/usr/local/ANTs/antsbin/bin:/Users/rdp20/Dropbox/Martinos/Scripts/bash_scripts:/Applications/dsi_studio.app/Contents/MacOS:/Users/rdp20/Dropbox/Github/mrtrix3/bin:/Users/rdp20/Dropbox/Github/mrtrix3/scripts:/usr/local/fsl/bin:/usr/local/ANTs/antsbin/bin:/Users/rdp20/Dropbox/Martinos/Scripts/bash_scripts:/Applications/dsi_studio.app/Contents/MacOS:/Users/rdp20/Dropbox/Github/mrtrix3/bin:/Users/rdp20/Dropbox/Github/mrtrix3/scripts:/usr/local/camino/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin
MAIL=/var/mail/nexmac14
PWD=/Users/nexmac14
LANG=en_US.UTF-8
PS1=\[\033[1;32m\]\u:\[\033[1;34m\] \W\[\033[1;34m\] $\[\033[0m\]
HOME=/Users/nexmac14
SHLVL=2
LOGNAME=nexmac14
FSLDIR=/usr/local/fsl
SSH_CONNECTION=172.20.143.146 59904 172.21.7.208 22
MACI64=1
_=/usr/bin/env


Here is my previous question (since the Reply button doesn't add the previous conversation):
Hi Rodrigo,

Are you starting FSLView from the terminal?

Cheers,

Paul

On 22 July 2016 at 20:46, Rodrigo Perea <[log in to unmask]> wrote:
Hi all,

I installed FslView in two OSX machines (Version: 10.10.5 and 10.9.5) and I am using FSLView (3.2.0)  to generate some masks. However, I can't seem to save the masks in *.nii.gz (as it always outputs them in *.hdr *.img). I can use mri_convert to do this conversion but I feel this is an extra step that I would like to avoid.

thanks for your help,

Rodrigo