you have to create the directory before you can cd to it. If you don't know how to create a directory in unix, then you should take some time to learn unix before trying to run FS.
On 08/31/2017 12:22 PM, Ledesma, Jason wrote: > > 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.lede...@labiomed.org <mailto:jason.lede...@labiomed.org> > > ------------------------------------------------------------------------ > *From:* freesurfer-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Ledesma, Jason > <jason.lede...@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.lede...@labiomed.org <mailto:jason.lede...@labiomed.org> > > ------------------------------------------------------------------------ > *From:* freesurfer-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Bruce Fischl > <fis...@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.lede...@labiomed.org > > > > > ____________________________________________________________________________________________________ > > From: freesurfer-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of > > Bruce Fischl <fis...@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.lede...@labiomed.org > > > > > > >___________________________________________________________________________________________________ > > _____________________________________________________________________ > > > From: freesurfer-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of > > Bruce Fischl <fis...@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.lede...@labiomed.org > > > > > > > >>__________________________________________________________________________________________________ > > _____________________________________________________________________ > > > _ > > > > LA BioMed Warning: This email (and any attachments) is intended > for the use of the person to > > which it is addressed. It may contain information that is privileged and > > > > confidential. As the recipient, you are obligated to maintain it > in a safe, secure and > > confidential manner. Unauthorized disclosure or failure to maintain > > > > confidentiality may subject you to governmental penalties. > Should you not be the intended > > recipient, please notify us by return email, and delete this message > from > > > your > > > > computer at once. > > > > > > > >>__________________________________________________________________________________________________ > > _____________________________________________________________________ > > > _ > > > > > > > > > > > > > > > > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
