Thanks Zeke. I tried upgrading to the latest FS version, 5.2.0, but I see that the available download <ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.2.0/freesurfer-Linux-centos4-stable-pub-v5.2.0.tar.gz>is only in .tar.fz format rather than in .VDI format, as v5.1.0<ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.1.0/freesurfer-Virtualbox-linux-x86-stable-pub-v5.1.0-full.vdi>was (and the .TAR archive does not contain a .VDI file inside it). Virtualbox seems to only accept the VDI format. Apologies if there's something obvious here that I"m not seeing..
And yes, it's true that I eventually did get mri_concat to work in QDEC, however that was only after repeatedly trying the same thing, I hadn't really changed anything. My guess is that, when I used to get that error from QDEC/mri_concat in the past, it was another case of mri_concat not responding to the command line. This could be, as Doug says, a problem with my Virtualbox, but unfortunately I don't know what else to do with it, and I've been wanting to complete this analysis for weeks now... :( On 1 April 2013 15:24, <zkauf...@nmr.mgh.harvard.edu> wrote: > Hi Tudor, > > That is unfortunate. You mention in the email below dated (Feb 1) that you > got mri_concat working for you. If it worked for you then, but doesnt now, > and nothing changed in the meantime, Im not sure there's much we can do to > diagnose the issue. The mri_concat binary I sent you works in our CentOS4 > environment and as well as the countless others who have downloaded > freesurfer 5.1 for CentOS4. Are you required to use 5.1 for your > analysis? Freesurfer 5.2 was released earlier this month and can be > downloaded here: > > http://surfer.nmr.mgh.harvard.edu/fswiki/Download > > -Zeke > > > > > Hi Zeke, > > > > Thanks very much for this, I replaced the file with the one you sent, but > > now after typing a test command: > > mri_concat -i C01.nii.gz -i C02.nii.gz -o test.nii.gz > > or indeed after typing mri_concat on its own, I always get the message > > "Killed" at the command line! > > > > Tudor > > ---------------------------- Original Message ---------------------------- > Subject: Re: [Freesurfer] Error from mri_concat while using QDEC > From: "Tudor Popescu" <tud...@gmail.com> > Date: Fri, February 1, 2013 12:12 pm > To: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> > Cc: "free surfer" <freesurfer@nmr.mgh.harvard.edu> > -------------------------------------------------------------------------- > > Hi Doug > > Strangely, the basic mri_concat command now worked, and so did the full > one. I think I initially had a "\" at the end of my command, just after the > file name, which should not have been there; although having tried again > with the backslash reinstated at the end, the command still worked. Also, > the Analyze in the QDEC GUI now completes without error as well. > > It's quite frustrating that I still don't know why it hasn't been working > all this time, especially since I didn't really do anything different now > (that I was aware of!) and the files were located on the same partition > (Virtualbox's shared folder). > > Anyhow, thanks again for your kind help! > > Tudor > > > 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. > >
_______________________________________________ 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.
