> On Oct 6, 2015, at 7:47 AM, dgw <dgwakeman@gmail.com> wrote:
>
> what operating system are you running? 64 bit or 32 bit?
> Why did you decide to install version 5.0 instead of the current stable 5.3?
>
> hth
> d
>
>> On Mon, Oct 5, 2015 at 5:41 PM, Timothy Le <tle7@stanford.edu> wrote:
>> Hi,
>> From the following output, how should I proceed?
>> Thank you very much
>> Timothy Le
>>
>> On Oct 2, 2015, at 11:55 AM, Timothy Quang-Tin Le <tle7@stanford.edu> wrote:
>>
>> 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 <dgwakeman@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 <tle7@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
>>>> <fischl@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
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>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>
>>