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Hi,
   Can you try the four steps from this post:

https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=FSL;bd0fa8bf.2004

( basically modifying dl_cmd_opts and re-running the fslpython install script ).

Hope this helps,
Kind Regards,
Matthew
--------------------------------
Dr Matthew Webster
FMRIB Centre 
John Radcliffe Hospital
University of Oxford

On 18 May 2020, at 18:56, Melody Ding <[log in to unmask]> wrote:

Hi,

I am trying to use FSL in Freesurfer's dt_recon. However, it seems that my FSL package was never installed correctly. I get the same error in the initial installation and when I try to reinstall with fslpython_install.sh:

-----------------------
(base) melodys-mbp:~ melodyding$ sudo /usr/local/fsl/etc/fslconf/fslpython_install.sh -f $FSLDIR
Stage 1
By installing this python distribution you agree to the license terms in
/usr/local/fsl/fslpython/LICENSE.txt
100%
/usr/local/fsl/etc/fslconf/fslpython_install.sh: line 188: /usr/local/fsl/fslpython/bin/conda: No such file or directory
/usr/local/fsl/etc/fslconf/fslpython_install.sh: line 189: /usr/local/fsl/fslpython/bin/conda: No such file or directory
/usr/local/fsl/etc/fslconf/fslpython_install.sh: line 190: /usr/local/fsl/fslpython/bin/conda: No such file or directory
/usr/local/fsl/etc/fslconf/fslpython_install.sh: line 191: /usr/local/fsl/fslpython/bin/conda: No such file or directory
Stage 2
100%
Failed to create FSL Python environment - see /var/folders/mc/wg8nk7s52yn4rs1trxcf4w880000gn/T/fslpythonXXXX.ufEwp73k/fslpython_miniconda_installer.log for details
-----------------------

Inside the fslpython_miniconda_installer.log, I see the error:

-----------------------
Installing FSL conda distribution into /usr/local/fsl/fslpython
 % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                Dload  Upload   Total   Spent    Left  Speed

 0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
 0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
/usr/local/fsl/etc/fslconf/fslpython_install.sh: line 203: /usr/local/fsl/fslpython/bin/conda: No such file or directory
-----------------------

I'm on a Mac Mojave 10.14.8. Can you help with this problem?

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