External Email - Use Caution
Hi Rosie,
The segmentHA_T1.sh script is located in the $FREESURFER_HOME/bin
directory. It looks like your PATH environment variable does not include
this directory.
If the $FREESURFER_HOME variable is set (you can check by running `echo
$FREESURFER_HOME`), you should be able to update your PATH with `export
PATH=${FREESURFER_HOME}/bin:${PATH}`**
Commands to set FREESURFER_HOME and update your PATH can be added to your
shell startup script (e.g. ~/.bashrc) so they are executed automatically
when you open a shell window.
** This assumes your shell is bash. The commands may be slightly different
if using a different shell.
-Paul
On Tue, Jul 6, 2021 at 11:42 AM Rosalia Dacosta Aguayo <rdacos...@gmail.com>
wrote:
> External Email - Use Caution
>
> Following this more actualized link: *MailScanner has detected a possible
> fraud attempt from "secure-web.cisco.com" claiming to be*
> https://secure-web.cisco.com/1xJ_x-nVoRHJ_8tlPreFyUXBI47cl6teOQogPB6cqAAZMZsE_QAAi4Rk1CiYqowfhElV3qqi2zPcUczZbQ4vzqsa-gLGOJ9cU0XTMCAtpq-m9y9RwH8241njd8DPyK_IlYZZbOO6iyKq8hlunF84qhpBWnoJi9JH23i8_rHp3L5TVxoxX9dYqWwmN3zBCoEKOuswDJnsISG_U31dNIQfGonc21SdH2D2RNz91JP_bd4R4iwff-mpz20xs_tSr9VoGKnRzo8RbCGEl4UXqFNh6uA/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FHippocampalSubfieldsAndNucleiOfAmygdala
> <https://secure-web.cisco.com/1ozTwtUw1KSbQpdNIwz2_3DPsUQKXTak4jBUzEnwIwEGF0QA7dU_-WV0knTWg34z8sLPS4TLvOowD6YEHvTPyuu1COU4jC563p9sON2p14wsI0mWSVnMilPCEFBKfXGbJmDCkIIe9mDAmujVdwFROi8q9itBngp6RN-ghAwNGf8tT3Vb_bKoCj-_QoTxXXQUDaufWAGWvcAVqiwBXQtF106QHM6fplsqgPemPccDFDES4yyFJmuWU70g7FR5w6f_0M7Jr1hcS41Qt3TOypkKOPw/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FHippocampalSubfieldsAndNucleiOfAmygdala>
>
> When I run the command, it gives me this error:
>
> rosalia@rosalia-Lenovo-Y520-15IKBN ~/Desktop/CAN_RUTI $ segmentHA_T1.sh
> sub-002_ses-BSL
> segmentHA_T1.sh: command not found
> rosalia@rosalia-Lenovo-Y520-15IKBN ~/Desktop/CAN_RUTI $
>
>
> Any idea what I am doing wrong?
>
> Kind regards,
> Rosie
>
>
> On Tue, Jul 6, 2021 at 5:32 PM Rosalia Dacosta Aguayo <rdacos...@gmail.com>
> wrote:
>
>> Dear Freesurfer team,
>>
>> Following this link: *MailScanner has detected a possible fraud attempt
>> from "secure-web.cisco.com" claiming to be*
>> https://secure-web.cisco.com/1OH9tdDUm2xb0DBlFPNf9MCt5qwMcva-qL58p29JrWNboyX78LaYqNlVlRJVhD6n7-3WjyIKHI7EEUTay2fKsZtP7Ke6bm7wzr8dvpOBQSFlzYa9h4Lbz1z3QSKQsYY2v91AOUyH0O45B360W7jhPIHCOSYJNVd_OOJgVGJeln2-IOij5SIGlsHOQIQxS-H6pfDAgYZcuYWUZe5aikCWPDR9KENAh7nrfwlQKgK9MGVoBQGEiHmhZNuON_iRvde5anaQb4p2UE1HosNXZuf-5zg/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FHippocampalSubfieldSegmentation
>> <https://secure-web.cisco.com/1fQCWx6VvVe6bnQBSadUABOYFVbWEBpT0ywgDNDDsVpzEGUBH_kg2PkoWx0F3kwRGJVaDxNSJwkHTwqevqOZSGZ8ULz_R7OboB9M1Ba0V1nC1be99hx6HywXYKaK72JzFzDxxlZeEoFsLiXoO5YJEbvJr6o3NF64CxbWe3UBYkT2ppGaaa8wlHYbRMUZdARuEu56utqfXKJd12ikiPqxTF5W7HYKJUAQyGmzCaldBNmYbavAHh9lZ-8_hKAPYmRVw-W3qiZ84ei0nzJ_8tPXlhw/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FHippocampalSubfieldSegmentation>
>>
>> It says how to run segmentation of hippocampal subfields before running
>> recon-all but not once you already have recon-all -all run.
>>
>> Any suggestions on how I can get the segmentation of hippocampal
>> subfields under this situation would be appreciated.
>>
>> Kind regards,
>> Rosie
>>
>>
>> _______________________________________________
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> https://secure-web.cisco.com/1zyHSzZEngxMW5RxmNZeUiiItm9JF9jADXnpBS-J9zLIYY7PeJ3h0ZEm94BM9WTTAc2x4ZUvUoMU5pK4gXH7jtOc0TgPnpoZpx8eKWZnr5g12OX5eZJbO0gRhtf1iLAWcXiCeNHDmtOpeqM_jrVmHb5OcQI2yLMS_xibYDlIZ_WkKYRGv-Qf02qqa_Tbt0ZwVCcfVcVvq9uIVgpmXHinX61MZ6zAcK1hOVsL65F4OrM2b7m1-hbcZlXagT01ttCO24U2QOWo7RGlxFhGHKtU8_g/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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