Hi all, It worked! I was setting up the alias in the shell, and it didn't work. I set up now the alias as a global alias in the tcsh profile file (~/.tcshrc) and it worked. No problem this time.
Best, MBP On dijous 28 abril 2016 10:47 CEST, BAUTISTA-PERPINYA Maximilià<maximila.bautista-perpi...@etu.unistra.fr> wrote: > Hi Eugenio and all FS experts, > > I tried your suggestion of making an alias 'mv' > 'mv -f', but it still > didn't work. I am working on a tcsh shell. The alias does work when I type on > the terminal, but doesn't seem to be changed when running recon-all. Any > other suggestions? Any help could be greatly appreciated. > > Best, > > Max > > > > On dijous 21 abril 2016 17:09 CEST, Eugenio Iglesias <e.igles...@bcbl.eu> > wrote: > > > Dear Maximilià, > > first of all, sorry for the late response. > > We assume throughout the code that mv a.ext b.ext will overwrite b.ext if > > it exists. If this is not the case in your system, maybe you could create > > an alias from 'mv' -> 'mv -f' before calling recon-all? > > Cheers, > > /Eugenio > > > > Juan Eugenio Iglesias > > Postdoctoral researcher BCBL > > www.jeiglesias.com > > www.bcbl.eu > > > > Legal disclaimer/Aviso legal/Lege-oharra: www.bcbl.eu/legal-disclaimer > > > > ----- Original Message ----- > > From: "BAUTISTA-PERPINYA Maximilià" > > <maximila.bautista-perpi...@etu.unistra.fr> > > To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu> > > Sent: Monday, April 18, 2016 9:35:05 AM > > Subject: [Freesurfer] Hippocampal subfields, stuck? > > > > Dear all experts, > > > > I am running FS 6dev version. This is my recon-all comand: "recon-all > > -nuintensitycor-3T -i [directory] -s [subjectname] -all > > -hippocampal-subfields-T1". > > > > Everything goes fine until the ''Hippocampal Subfields processing (T1 > > only)''. At some point it says '"mv: overwrite `imageDump.mgz'?". It > > doesn't matter whether I say y or n; it seems it gets stuck and doesn't > > progress at all. There is no cpu usage. Any recommendations? I have > > attached the hippocampal subfields log. > > > > More info: > > --------------------------------------------------------------------- > > > > FREESURFER_HOME: /usr/local/freesurfer > > > > Build stamp: freesurfer-Linux-centos6_x86_64-dev-20160202 > > > > RedHat release: CentOS release 6.7 (Final) > > > > Kernel info: Linux 2.6.32-573.7.1.el6.x86_64 x86_64 > > > > --------------------------------------------------------------------- > > > > > > -- > > Maximilià Bautista-Perpinyà, BSc > > Master student at Joint Master in Neuroscience (JMN) > > Université de Strasbourg (in partnership with Universität Freiburg and > > Universität Basel) > > & > > Master Intern at Biological and Personality Psychology Laboratory > > Department of Psychology, Universität Freiburg > > > > (+49) 015759302368 > > maximila.bautista-perpi...@etu.unistra.fr > > maxbau...@gmail.com > > > > _______________________________________________ > > 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. > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > -- > Maximilià Bautista-Perpinyà, BSc > Master student at Joint Master in Neuroscience (JMN) > Université de Strasbourg (in partnership with Universität Freiburg and > Universität Basel) > & > Master Intern at Biological and Personality Psychology Laboratory > Department of Psychology, Universität Freiburg > > (+49) 015759302368 > maximila.bautista-perpi...@etu.unistra.fr > maxbau...@gmail.com > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Maximilià Bautista-Perpinyà, BSc Master student at Joint Master in Neuroscience (JMN) Université de Strasbourg (in partnership with Universität Freiburg and Universität Basel) & Master Intern at Biological and Personality Psychology Laboratory Department of Psychology, Universität Freiburg (+49) 015759302368 maximila.bautista-perpi...@etu.unistra.fr maxbau...@gmail.com _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
