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Yes, so I tried both installing missing libraries and removing some outdated ones to no effect.

This was the result of mri_convert --help: mri_convert: 

mri_convert: /lib/x86_64-linux-gnu/libcrypt.so.1: version `XCRYPT_2.0' not found (required by mri_convert)

On Feb 3, 2021, at 1:04 PM, Hoopes, Andrew <AHOOPES@mgh.harvard.edu> wrote:

Thanks. Can you run something like `mri_convert --help` to check if this is an issue with all the FS binaries? It seems like this is a known ubuntu bug:

 

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It might require updating some libraries on your end, but it’d be nice to see if this is a global issue first.

Andrew

 

 

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Langan, Mackenzie <mackenzie.langan@icahn.mssm.edu>
Date: Wednesday, February 3, 2021 at 11:46 AM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Issue with the hypothalamic segmentation

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Hi Andrew

We are running Ubuntu 19.10 on our computer and as for Freesurfer were we tried to run this on freesurfer 7 and the development version but both produced this error. (freesurfer 7: freesurfer-linux-centos7_x86_64-7.1.0-20200511-813297 Freesurfer DEV: freesurfer-linux-centos8_x86_64-dev-20201109-2e16dca)

 

-Mackenzie

 

On Wed, Feb 3, 2021 at 10:37 AM Hoopes, Andrew <AHOOPES@mgh.harvard.edu> wrote:

Hi Mackenzie,

 

Can you let us know what OS and version you’re running this on?

 

Thanks,

Andrew

 

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Langan, Mackenzie <mackenzie.langan@icahn.mssm.edu>
Date: Wednesday, February 3, 2021 at 10:31 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Issue with the hypothalamic segmentation

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Good Morning,

 

I have been trying to run the hypothalamic segmentation and get the following error: 

 

aalqadi@athena:/zstore/data/aalqadi/aalqadi/mPFC/data$ mri_segment_hypothalamic_subunits --s S05486

Traceback (most recent call last):

  File "/usr/local/freesurfer_dev/freesurfer/python/scripts/mri_segment_hypothalamic_subunits", line 10, in <module>

    import freesurfer as fs

  File "/usr/local/freesurfer_dev/freesurfer/python/packages/freesurfer/__init__.py", line 8, in <module>

    from . import bindings

ImportError: /lib/x86_64-linux-gnu/libcrypt.so.1: version `XCRYPT_2.0' not found (required by /usr/local/freesurfer_dev/freesurfer/python/packages/freesurfer/bindings.cpython-36m-x86_64-linux-gnu.so)

 

 

We installed the development version of freesurfer to see if that would work to run this, but that didn't work. We then installed XCRYPT_2.0 but still got the same error. We have two versions of python on our machine which we amended to fix the problem, but still get the same error. I am at a loss as to what I should try next to implement this. Any help would be great. Thanks

 

 

 

Best,

Mackenzie

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