Hi Bruce,


Do you have any suggestions as to how to determine the correct directory and pathway to use?


Sincerely,

Jason Ledesma
Staff Research Associate
Phone: 1(424)571-7755
E-mail: jason.ledesma@labiomed.org


From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Ledesma, Jason <jason.ledesma@labiomed.org>
Sent: Wednesday, August 30, 2017 1:39:30 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Freesurfer Preliminary Questions
 

Bruce,


It appears that the directory does not exist. See the following:


fsuser@xubuntu-VirtualBox:~$ ls C:\tutorial data
ls: cannot access C:tutorial: No such file or directory
ls: cannot access data: No such file or directory

fsuser@xubuntu-VirtualBox:~$ ls tutorial data
ls: cannot access tutorial: No such file or directory
ls: cannot access data: No such file or directory

Here is what happens when doing a general ls command:


fsuser@xubuntu-VirtualBox:~$ ls
buckner_data-tutorial_subs  error.log  Pictures  surfer.log     Videos
Desktop                     export     Public    tar
Documents                   matlab     setenv    Templates
Downloads                   Music      source    tutorial_data
fsuser@xubuntu-VirtualBox:~$ ^C
fsuser@xubuntu-VirtualBox:~$ ^C
fsuser@xubuntu-VirtualBox:~$ 


Sincerely,

Jason Ledesma
Staff Research Associate
Phone: 1(424)571-7755
E-mail: jason.ledesma@labiomed.org


From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Bruce Fischl <fischl@nmr.mgh.harvard.edu>
Sent: Wednesday, August 30, 2017 1:35:49 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Freesurfer Preliminary Questions
 
thanks Jason

does that directory exist? What happens if you try to ls it?

Bruce
On Wed, 30 Aug
2017, Ledesma, Jason wrote:

>
> Hi Bruce,
>
>
> Here is the command that I tried and the resulting output/error message:
>
>
> fsuser@xubuntu-VirtualBox:~$ export TUTORIAL_DATA=C:\tutorial data
> fsuser@xubuntu-VirtualBox:~$ export SUBJECTS_DIR=$TUTORIAL_DATA/buckner_data/tutorial_subjs
> fsuser@xubuntu-VirtualBox:~$ cd $SUBJECTS_DIR
> bash: cd: C:tutorial/buckner_data/tutorial_subjs: No such file or directory
> fsuser@xubuntu-VirtualBox:~$ ^C
> fsuser@xubuntu-VirtualBox:~$ 
>
>
> Sincerely,
>
> Jason Ledesma
> Staff Research Associate
> Phone: 1(424)571-7755
> E-mail: jason.ledesma@labiomed.org
>
> ____________________________________________________________________________________________________
> From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of
> Bruce Fischl <fischl@nmr.mgh.harvard.edu>
> Sent: Wednesday, August 30, 2017 1:24:12 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] Freesurfer Preliminary Questions  
> Hi Jason
>
> in general it is much easier for us if you can cut and paste text into
> the email. Pictures are useful for showing things in the data and such
>
> cheers
> Bruce
> On
> Wed, 30 Aug 2017, Ledesma, Jason wrote:
>
> >
> > Hi Bruce,
> >
> >
> > Thank you for your quick response. Attached are photos in number order which should help to
> explain my situation. The first three photos depict the tutorial data as
> > they are downloaded into my computer. Photo 4 illustrates the version of Freesurfer that I am
> using. Photos 5 and 6 express how the downloaded tutorial data folder has
> > been shared to Freesurfer.  Photo 7 illustrates an example of the commands I have used. I have
> tried other pathways as well but am still unsure which the proper command
> > should be. Unix is in fact new to me. Let me know if you require any other details. Looking
> forward to hearing your thoughts.
> >
> >
> > Sincerely,
> >
> > Jason Ledesma
> > Staff Research Associate
> > Phone: 1(424)571-7755
> > E-mail: jason.ledesma@labiomed.org
> >
> >___________________________________________________________________________________________________
> _____________________________________________________________________
> > From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of
> Bruce Fischl <fischl@nmr.mgh.harvard.edu>
> > Sent: Wednesday, August 30, 2017 12:10:24 PM
> > To: Freesurfer support list
> > Subject: Re: [Freesurfer] Freesurfer Preliminary Questions  
> > Hi Jason
> >
> > can you elaborate about what you mean by you "cannot interact with the
> > data"?
> >
> > In general, please send us the full command you ran and all its screen
> > output including whatever errros you encountered
> >
> > cheers
> > Bruce
> > On
> > Wed, 30 Aug 2017, Ledesma, Jason wrote:
> >
> > >
> > > To whom it may concern,
> > >
> > >
> > > I am to attend the upcoming Freesurfer course session in Boston, and I would like to ask a few
> preliminary questions.  I am currently attempting to run Freesurfer 5.3
> > > on a windows unit via the Oracle VM VirtualBox Manager. I have tried to follow the instructions
> of the tutorial thus far, but am having trouble properly downloading
> > the
> > > tutorial data into Freesurfer (the data I am attempting to acquire can
> be found at http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/OutputData_freeview). I have
> > > tried setting up a shared folder and placing the data in a "Machine Folder", but I still cannot
> interact with the data. Do you know why this may be? I see that a
> > > license key must first be obtained in some instances; perhaps this is the reason there are
> issues. Also, what is the best way to download the most recent version of
> > > Freesurfer on windows? Thank you.
> > >
> > >
> > > Sincerely,
> > >
> > > Jason Ledesma
> > > Staff Research Associate
> > > Phone: 1(424)571-7755
> > > E-mail: jason.ledesma@labiomed.org
> > >
> >>__________________________________________________________________________________________________
> _____________________________________________________________________
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