Thank you very much for your help. I am able to see that my curent directory has a total of 11G and only 1.6G are available.

FreeSurfer:~> df -h . Filesystem            Size  Used Avail Use% Mounted on /dev/sda1              11G  8.3G  1.6G  85% /

When I try to use the quota command it says "command not found".

Since there is only 1.6G available in my home directory, what can I do to find a place to save the sample data from the website to use for the tutorials?

By checking the freespace on the rest of the files systems it seems like there is no place where I can download 100G of data... FreeSurfer:~> df -h Filesystem            Size  Used Avail Use% Mounted on /dev/sda1              11G  8.3G  1.6G  85% / tmpfs                 1.5G     0  1.5G   0% /lib/init/rw varrun                1.5G  104K  1.5G   1% /var/run varlock               1.5G     0  1.5G   0% /var/lock udev                  1.5G  152K  1.5G   1% /dev tmpfs                 1.5G     0  1.5G   0% /dev/shm lrm                   1.5G  2.4M  1.5G   1% /lib/modules/2.6.28-11-generic/volatile FreeSurfer:~>

Any ideas of what I can do to change this? Thanks again for your help. I really appreciate it.

~Rayna~ ________________________________________ From: Paul Raines [raines@nmr.mgh.harvard.edu] Sent: Thursday, May 10, 2012 1:55 PM To: Trietsch, Rayna Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Getting started with Freesurfer on Windows

Small unix lesson

A period "." is shortcut for the current directory

"df" is a utility for seeing how much free space is left on a file system. Unless quotas are involved which I am pretty sure they are not on the VirtualBox image distributed. At the Martinos Center quotas are involved with home directories, mail boxes and the /cluster volumes.

If you are in a directory and run

df -h .

you will see how much free space is left on the filesystem the directory resides on. For example, in my home diretory I run 'df .' and I see

| gate:~$ df -h . | Filesystem Size Used Avail Use% Mounted on | homes:/local_mount/homes/011 | 287G 69G 219G 24% /autofs/homes/011

which means there is 219GB free space on the filesystem my homedir is on

But like I said home directories have quotas so I run

| gate:~$ quota -s | Filesystem blocks quota limit grace files quota limit | homes:/local_mount/homes/011 | 1746M 3907M 3956M 20004 0 0

and I see I am using 1.7GB out of my 4GB home directory quota.

-- Paul Raines (http://help.nmr.mgh.harvard.edu)

On Thu, 10 May 2012 1:47pm, Trietsch, Rayna wrote:

Hi,

I am a research assistant and I'm new to Freesurfer. I am using Windows and downloaded the VirtualBox and Freesurfer. I was able to get through the steps on the website for "Testing Freesurfer". However, I get stuck when I am trying to download the sample data for the tutorials. In the directions for downloading the sample data, it tells you to find a directory with 100GB of space. How do I do that? It seems to me that there is no area in my directory which has any where near that much room. The computer which I am running on has over 800G free but I don't see how that relates to the terminal which I am using in VirtualBox. I am not familiar with Linux so I am doing my best to figure it out but I just can't see to find a way to download the data for the tutorials. Any help would be much appreciated. Thank you very much.

~Rayna~

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Assuming you have the free space on your Windows computer's disk, you would need to create a virtual disk big enough in VirtualBox and format it and mount it (at for example /data) in the Linux system. Then put the data there.

That is the basic concept. The details on doing it are not something for the faint of heart or easy to dictate to you in an email. But here is a web page that shows it pretty well if you want to try it

http://howtobi.wordpress.com/2010/10/30/adding-a-additional-hard-disk-in%C2%...

In that page he mounts the new disk at /apps, but I suggest you use /data as the mount point. After Ubuntu boots you will have to run 'sudo' to become root to do the fdisk/mkfs commands. You need to make sure to do "mkdir /data" before you add the appropriate line to /etc/fstab. You don't need to reboot after that. Just run "mount /data". Then change the permissions on /data so you can write to it as the normal login user using the chown & chmod commands. Then 'exit' to get out of the sudo shell.

-- Paul Raines (http://help.nmr.mgh.harvard.edu)

On Thu, 10 May 2012 2:30pm, Trietsch, Rayna wrote:

Thank you very much for your help. I am able to see that my curent directory has a total of 11G and only 1.6G are available.

FreeSurfer:~> df -h . Filesystem            Size  Used Avail Use% Mounted on /dev/sda1              11G  8.3G  1.6G  85% /

When I try to use the quota command it says "command not found".

Since there is only 1.6G available in my home directory, what can I do to find a place to save the sample data from the website to use for the tutorials?

By checking the freespace on the rest of the files systems it seems like there is no place where I can download 100G of data... FreeSurfer:~> df -h Filesystem            Size  Used Avail Use% Mounted on /dev/sda1              11G  8.3G  1.6G  85% / tmpfs                 1.5G     0  1.5G   0% /lib/init/rw varrun                1.5G  104K  1.5G   1% /var/run varlock               1.5G     0  1.5G   0% /var/lock udev                  1.5G  152K  1.5G   1% /dev tmpfs                 1.5G     0  1.5G   0% /dev/shm lrm                   1.5G  2.4M  1.5G   1% /lib/modules/2.6.28-11-generic/volatile FreeSurfer:~>

Any ideas of what I can do to change this? Thanks again for your help. I really appreciate it.

~Rayna~ ________________________________________ From: Paul Raines [raines@nmr.mgh.harvard.edu] Sent: Thursday, May 10, 2012 1:55 PM To: Trietsch, Rayna Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Getting started with Freesurfer on Windows

Small unix lesson

A period "." is shortcut for the current directory

"df" is a utility for seeing how much free space is left on a file system. Unless quotas are involved which I am pretty sure they are not on the VirtualBox image distributed. At the Martinos Center quotas are involved with home directories, mail boxes and the /cluster volumes.

If you are in a directory and run

   df -h .

you will see how much free space is left on the filesystem the directory resides on. For example, in my home diretory I run 'df .' and I see

| gate:~$ df -h . | Filesystem Size Used Avail Use% Mounted on | homes:/local_mount/homes/011 | 287G 69G 219G 24% /autofs/homes/011

which means there is 219GB free space on the filesystem my homedir is on

But like I said home directories have quotas so I run

| gate:~$ quota -s | Filesystem blocks quota limit grace files quota limit | homes:/local_mount/homes/011 | 1746M 3907M 3956M 20004 0 0

and I see I am using 1.7GB out of my 4GB home directory quota.

-- Paul Raines (http://help.nmr.mgh.harvard.edu)

On Thu, 10 May 2012 1:47pm, Trietsch, Rayna wrote:

...

Hi,

I am a research assistant and I'm new to Freesurfer. I am using Windows and downloaded the VirtualBox and Freesurfer. I was able to get through the steps on the website for "Testing Freesurfer". However, I get stuck when I am trying to download the sample data for the tutorials. In the directions for downloading the sample data, it tells you to find a directory with 100GB of space. How do I do that? It seems to me that there is no area in my directory which has any where near that much room. The computer which I am running on has over 800G free but I don't see how that relates to the terminal which I am using in VirtualBox. I am not familiar with Linux so I am doing my best to figure it out but I just can't see to find a way to download the data for the tutorials. Any help would be much appreciated. Thank you very much.

~Rayna~

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer