Hi, Thank you very much for your response. The output of that command was: tle7@sni-vcs-gotlib:~$ ls -l /home/tle7/freesurfer/bin/mri_convert -rwxrwx--x 1 tle7 stanford 1672136 Aug 15 2010 /home/tle7/freesurfer/bin/mri_convert tle7@sni-vcs-gotlib:~$
On Fri, Oct 2, 2015 at 10:39 AM, dgw <dgwake...@gmail.com> wrote: > Timothy, > > What is the output of this command: > > ls -l /home/tle7/freesurfer/bin/mri_convert > > ? > > hth > d > > On Fri, Oct 2, 2015 at 1:36 PM, Timothy Quang-Tin Le <t...@stanford.edu> > wrote: > > Hi, > > I tried the chmod command, but it did not work. How I check that I've > > downloaded the correct version? > > Thank you very much > > Timothy > > > > On Thu, Oct 1, 2015 at 8:10 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu > > > > wrote: > >> > >> can you try chmod a+x on one of them and see if it can then be executed? > >> e.g.: > >> > >> chmod a+x /home/tle7/freesurfer/bin/mri_convert > >> /home/tle7/freesurfer/bin/mri_convert > >> > >> and see if you get an error. If not, you probably downloaded the wrong > >> hardware version > >> cheers > >> Bruce > >> > >> > >> > >> On Tue, 29 Sep 2015, Timothy Quang-Tin Le wrote: > >> > >>> > >>> Hello, > >>> When I run the command "sFSstart" on version 5.0.0, I am receiving the > >>> messages below. Would you please explain to me what the problem is? It > >>> seems like there is trouble accessing the bin. > >>> Thank you > >>> > >>> -------- freesurfer-Linux-centos5_x86_64-stable-pub-v5.0.0 -------- > >>> Setting up environment for FreeSurfer/FS-FAST (and FSL) > >>> FREESURFER_HOME /home/tle7/freesurfer > >>> FSFAST_HOME /home/tle7/freesurfer/fsfast > >>> FSF_OUTPUT_FORMAT nii > >>> SUBJECTS_DIR /home/tle7/freesurfer/subjects > >>> MNI_DIR /home/tle7/freesurfer/mni > >>> tle7@sni-vcs-gotlib:~$ sFSstart practicemotherdaughter 00152-DT2 > >>> studyPath /home/tle7/freesurfer/subjects/practicemotherdaughter > >>> H 0 > >>> checking sid number 00152-DT2 > >>> 1 > >>> 00152-DT2/MR.1.2.840.113619.2.283.4120.7575399.15360.1319907833.100.dcm > >>> Subject Stamp: freesurfer-Linux-centos5_x86_64-stable-pub-v5.0.0 > >>> Current Stamp: freesurfer-Linux-centos5_x86_64-stable-pub-v5.0.0 > >>> INFO: SUBJECTS_DIR is /home/tle7/freesurfer/subjects > >>> Actual FREESURFER_HOME /home/tle7/freesurfer > >>> Linux sni-vcs-gotlib.stanford.edu 3.13.0-61-generic #100-Ubuntu SMP > >>> Wed Jul 29 11:21:34 UTC 2015 x86_64 x86_64 x86_64 GNU/Linux > >>> /home/tle7/freesurfer/bin/mri_convert: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/flirt.fsl: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mri_convert: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/tkregister2_cmdl: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_normalize: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_watershed: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_gcut: Exec format error. Binary file not > >>> executable. > >>> /home/tle7/freesurfer/bin/mri_segment: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mri_label2label: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_em_register: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_ca_normalize: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_ca_register: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_ca_label: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mri_pretess: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mri_fill: Exec format error. Binary file not > >>> executable. > >>> /home/tle7/freesurfer/bin/mri_tessellate: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mri_concatenate_lta: Exec format error. > >>> Binary file not executable. > >>> /home/tle7/freesurfer/bin/mri_normalize_tp2: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mris_smooth: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mris_inflate: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mris_curvature: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mris_sphere: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mris_fix_topology: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mris_topo_fixer: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mris_ca_label: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mris_euler_number: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mris_make_surfaces: Exec format error. > >>> Binary file not executable. > >>> /home/tle7/freesurfer/bin/mris_register: Exec format error. Binary > >>> file not executable. > >>> /home/tle7/freesurfer/bin/mris_volmask: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mris_anatomical_stats: Exec format error. > >>> Binary file not executable. > >>> /home/tle7/freesurfer/bin/mrisp_paint: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mris_curvature_stats: Exec format error. > >>> Binary file not executable. > >>> /home/tle7/freesurfer/bin/mris_calc: Exec format error. Binary file > >>> not executable. > >>> /home/tle7/freesurfer/bin/mri_robust_register: Exec format error. > >>> Binary file not executable. > >>> /home/tle7/freesurfer/bin/mri_robust_template: Exec format error. > >>> Binary file not executable. > >>> /home/tle7/freesurfer/bin/mri_and: Exec format error. Binary file not > >>> executable. > >>> /home/tle7/freesurfer/bin/mri_or: Exec format error. Binary file not > >>> executable. > >>> /home/tle7/freesurfer/bin/mri_fuse_segmentations: Exec format error. > >>> Binary file not executable. > >>> /home/tle7/freesurfer/bin/mri_segstats: Exec format error. Binary file > >>> not executable. > >>> -cw256 option is now persistent (remove with -clean-cw256) > >>> /home/tle7/freesurfer/subjects/00152-DT2_v5 > >>> > >>> > >>> > mri_convert/home/tle7/freesurfer/subjects/practicemotherdaughter/rawdata/00152-DT2/MR. > >>> 1.2.840.113619.2.283.4120.7575399.15360.1319907833.100.dcm > >>> /home/tle7/freesurfer/subjects/00152-DT2_v5/mri/orig/001.mgz > >>> > >>> /home/tle7/freesurfer/bin/mri_convert: Exec format error. Binary file > >>> not executable. > >>> Linux sni-vcs-gotlib.stanford.edu 3.13.0-61-generic #100-Ubuntu SMP > >>> Wed Jul 29 11:21:34 UTC 2015 x86_64 x86_64 x86_64 GNU/Linux > >>> > >>> recon-all -s 00152-DT2_v5 exited with ERRORS at Mon Sep 28 10:43:57 > >>> PDT 2015 > >>> > >>> tle7@sni-vcs-gotlib:~$ > >>> > >>> > >>> > >> > >> _______________________________________________ > >> 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 > > > > > > 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 >
_______________________________________________ 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.
