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Hi, If you source the configuration (in case of FSL 4.1 it is this line:. /etc/fsl/4.1/fsl.sh), then there should be no need for this prefix anymore. It is also important to source this configuration in order to set the environmental variables for FSLOUTPUTTYPE and FSLDIR. have fun, wolf On 01/31/2013 04:13 PM, Sandra Petris wrote: > Hi I found out all the fsl scripts in the usr/bin directory and the > problem was....very silly it was a matter of writing: with this vm > before writing any script you nedd to write fsl4.1 -. > > So for example if you need to run the randomise script, you have to > write the following: > > fsl4.1-randomise....... > > thanks for you help!! > > sandra > > 2013/1/31 wolf zinke <[log in to unmask] <mailto:[log in to unmask]>> > > Hi, > > I think the more convenient way to install packages required for > FSL is to use the Synaptic package manager (in the top panel in > the system->Administration menu). Search in this GUI fo fsl and > select all required packages. Make sure to have the atlases > installed as well. (you also can run 'aptitude install fsl'). > > I am not sure, if you need to source the configuration script on > NeuroDebian as well, if so, you have to add the following line to > the ~/.bashrc file:. /etc/fsl/5.0/fsl.sh > > Check also http://neuro.debian.net/debian/extracts/fsl/README.Debian > > hope this helps, > wolf > > > On 01/31/2013 03:01 PM, Sandra Petris wrote: >> Hi Wolf, >> >> thanks for your help. I did install the vm (Virtual MAchine of >> NeuroDebian) following your suggestion and I downloaded fsl 4.1 >> (it was somehow preconfigured to dowload it). Even if I can open >> the gui from the terminal and visualize images with fslview, I >> cannot use the TBSS scripts (I need to run TBSS analysis). For >> example if I run the " tbss_1_preproc *nii.gz" and I am in the >> folder where the Fa images are, the terminal says that the >> command is not found....... >> >> do you know what might be going on? >> >> thanks a lot >> ciao >> sandra >> >> >> 2013/1/31 wolf zinke <[log in to unmask] >> <mailto:[log in to unmask]>> >> >> Hi, >> >> Are you running Windows? >> >> You can use the Virtual MAchine of NeuroDebian >> (http://neuro.debian.net/vm.html#chap-vm), which runs with >> Virtualbox. >> >> Good luck, >> wolf >> >> >> On 01/31/2013 10:56 AM, Sandra Petris wrote: >> >> Dear Fsl experts, >> >> I have a lenovo Intel Pentium CPU B960 2.20 GHz and 4 GB >> of RAM with no virtualization technology supported >> therefore I cannot install the VMware Player and Fsl >> vm.....I'm quite desperate.. is there any other way to >> install fsl efficiently on this kind of PC or it is not >> powerful enough? >> >> Thanks a lot and any advice will be greatly appreaciated >> >> Cheers >> >> sandra >> >> > >