[GSAS-II] [Ext]Re: [EXTERNAL] GSAS-II on Linux
Miguel A. Camblor
macamblor at icmm.csic.es
Tue Aug 5 06:02:49 CDT 2025
Dear all
To leave this clear in case someone experiences similar problems,
Carlo is right. I have upgraded my system to Debian 12 and my GSAS-II
installation is now working, apparently in full. I can add atoms and
constrains, refine, draw the structure etc and work without
segmentation fault errors. I am still using version 5817.
Thanks to all
Cheers
Miguel
Carlo Segre <segre at illinoistech.edu> escribió:
> I think that a native Debian installation will probably require at
> least Debian 12. I was not able to get the latest version to work
> on Debian 11 either.
>
> Carlo
>
> --
> Carlo Segre, Duchossois Professor of Physics
> Illinois Institute of Technology
>
>
> -------------------------
> FROM: GSAS-II <gsas-ii-bounces at aps.anl.gov> on behalf of Miguel
> A. Camblor via GSAS-II <gsas-ii at aps.anl.gov>
> SENT: Monday, August 4, 2025 9:07 AM
> TO: Zhang, Yuanpeng <zhangy3 at ornl.gov>
> CC: gsas-ii at aps.anl.gov <gsas-ii at aps.anl.gov>
> SUBJECT: [Ext]Re: [GSAS-II] [EXTERNAL] GSAS-II on Linux
>
> Dear Yuanpeng, Carlo, Brian and Alexander Thanks a lot to you
> all for your help. Following Yuanpeng's procedure I got the program
> working. For the current version, 5818, the data tab under phase
> didn't render well and I could not input any data
> ZjQcmQRYFpfptBannerStart
> This Message Is From an External Sender
> This message came from outside your organization.
>
>
>
> ZjQcmQRYFpfptBannerEnd
>
> Dear Yuanpeng, Carlo, Brian and Alexander
>
> Thanks a lot to you all for your help.
>
> Following Yuanpeng's procedure I got the program working. For the
> current version, 5818, the data tab under phase didn't render well
> and I could not input any data there. However, after going back to
> the previous version (5817) I could. What I can still not do is to
> draw the structure (it doesn't even take the background color
> selected). I have a lot of Gtk-warnings.
>
> Following Carlo's procedure when I try sudo python3 gitstrap.py the
> system says it needs matplotlib and OpenGL. But when I try to
> install those I got ERROR: No matching distribution found for OpenGL
>
> Alexander noticed that while he uses an old version of GSAS-II
> (5799, which I can't reach) during instalation numpy got upgraded to
> version 2.2.6, while mine is 1.26.4. When I follow Yuanpeng's
> procedure I got numpy updated to 2.3.2, so I think this might be a
> good clue to the problem.
>
> I will keep testing GSAS-II in my system.
>
> Thanks again to all.
> Miguel
>
> "Zhang, Yuanpeng" <zhangy3 at ornl.gov> escribió:
>
>> Hi Miguel,
>>
>> I was walking through the installation of GSAS-II on my Ubuntu
>> machine as created the following blog post,
>>
>> https://urldefense.us/v3/__https://iris2020.net/2025-08-01-gsasii_on_linux/*1*__;W10!!G_uCfscf7eWS!YPSteRqgopAbkM5dTspkSYc2Y4ewL1GtWbyXrQYk0Pbutm5Cm8w3qRxjiYG8X-7iuYjismg--QGWOfIKPddAuKi0_Q$
>>
>> to cover literally all my trials until getting it working. I
>> hope that will be somewhat helpful.
>>
>> Cheers,
>> Yuanpeng
>>
>>
>>
>> --
>>
>>
>>
>> DR. YUANPENG ZHANG
>>
>> Neutron Scattering Scientist
>>
>> Spallation Neutron Source
>>
>>
>>
>> OAK RIDGE NATIONAL LABORATORY
>>
>> 1 bethel valley road, Oak Ridge, TN 37830, US
>>
>> Mobile: +1(865)-335-4818
>>
>> Email: _zhangy3 at ornl.gov_ | Web: _https://urldefense.us/v3/__https://me.iris-home.net*2*___;W10!!G_uCfscf7eWS!YPSteRqgopAbkM5dTspkSYc2Y4ewL1GtWbyXrQYk0Pbutm5Cm8w3qRxjiYG8X-7iuYjismg--QGWOfIKPddR9cUhVQ$
>>
>> FROM: GSAS-II <gsas-ii-bounces at aps.anl.gov> on
>> behalf of Miguel A. Camblor via GSAS-II <gsas-ii at aps.anl.gov>
>> DATE: Friday, August 1, 2025 at 05:14
>> TO: gsas-ii at aps.anl.gov <gsas-ii at aps.anl.gov>
>> SUBJECT: [EXTERNAL] [GSAS-II] GSAS-II on Linux
>>
>> This Message Is From an External Sender
>> This email was sent from a non-ORNL address. If
>> suspicious, use the Report Phish button in Outlook.
>>
>>
>>
>> This Message Is From an External Sender
>> This message came from outside your organization.
>>
>>
>>
>> Dear all
>>
>> I am trying to use GSAS-II on my Linux Debian 11 but I get
>> segmentation fault errors that stop it. I am using the latest version
>>
>> Python: 3.11.8 from /home/msax/miniconda3/envs/gsas2env/bin/python.
>> wx: 4.2.3
>> matplotlib: 3.10.3
>> numpy: 1.26.4
>> scipy: 1.16.0
>> OpenGL: 3.1.9
>> Image: 11.3.0 (PIL or Pillow)
>> Platform: linux 64bit x86_64
>> Max threads:4
>> GSAS-II: 5818/v5.5.0 posted 31-Jul-25 16:38 (no new updates) [07d17120]
>>
>> If anyone is successfully using GSAS-II on linux, please let me
>> know which distribution or solution works.
>>
>> Cheers
>> Miguel
>>
>>
>> Miguel A. Camblor
>> Institute of Materials Science of Madrid
>> Spanish National Research Council-CSIC
>> Sor Juana Inés de la Cruz, 3
>> Cantoblanco, 28049 Madrid, Spain.
>> TEL: +34 91 334 9037
>> FAX: +34 91 372 0623
>> /Nanostructured Hybrid, Biohybrid & and Porous Materials[3]/
>> /Funk & Jazz & Science[4]/
>> /Google Scholar Profile[5]/
>
>
>
>
> Miguel A. Camblor
> Institute of Materials Science of Madrid
> Spanish National Research Council-CSIC
> Sor Juana Inés de la Cruz, 3
> Cantoblanco, 28049 Madrid, Spain.
> TEL: +34 91 334 9037
> FAX: +34 91 372 0623
> /Nanostructured Hybrid, Biohybrid & and Porous Materials/[6]
> /Funk & Jazz & Science/[7]
> /Google Scholar Profile/[8]
Vínculos:
---------
[1]
https://urldefense.us/v3/__https://iris2020.net/2025-08-01-gsasii_on_linux/__;!!G_uCfscf7eWS!YcH4m3HebQYUf6-qjgbxGkZpRVk1Pi9N5edx4vISVUB77d51qfEJrhAbbgsB1bBFeTEKaZK_EEv6Wg7aOhQX5GRVWQ%24
[2]
https://urldefense.us/v3/__https://me.iris-home.net/__;!!G_uCfscf7eWS!YcH4m3HebQYUf6-qjgbxGkZpRVk1Pi9N5edx4vISVUB77d51qfEJrhAbbgsB1bBFeTEKaZK_EEv6Wg7aOhQniojd2w%24
[3]
https://urldefense.us/v3/__http://www.icmm.csic.es/phbhmg/__;!!G_uCfscf7eWS!f5EyRWfTv6vGSz1GR1k_bxJTxjza5FATGW5yEAeTxQvyDXETj3CiKvjkr5_fxSYEDhT1xjxV7ASlDgWsZ_3Lx-bEJw%24
[4]
https://urldefense.us/v3/__http://www.icmm.csic.es/within-experimental-error/__;!!G_uCfscf7eWS!f5EyRWfTv6vGSz1GR1k_bxJTxjza5FATGW5yEAeTxQvyDXETj3CiKvjkr5_fxSYEDhT1xjxV7ASlDgWsZ_2T2oE8QQ%24
[5]
https://urldefense.us/v3/__http://scholar.google.es/citations?user=iHJHarsAAAAJ&hl=en__;!!G_uCfscf7eWS!f5EyRWfTv6vGSz1GR1k_bxJTxjza5FATGW5yEAeTxQvyDXETj3CiKvjkr5_fxSYEDhT1xjxV7ASlDgWsZ_2MUPaBUw%24
[6]
https://urldefense.us/v3/__http://www.icmm.csic.es/phbhmg/__;!!G_uCfscf7eWS!YcH4m3HebQYUf6-qjgbxGkZpRVk1Pi9N5edx4vISVUB77d51qfEJrhAbbgsB1bBFeTEKaZK_EEv6Wg7aOhTpzKXgyA%24
[7]
https://urldefense.us/v3/__http://www.icmm.csic.es/within-experimental-error/__;!!G_uCfscf7eWS!YcH4m3HebQYUf6-qjgbxGkZpRVk1Pi9N5edx4vISVUB77d51qfEJrhAbbgsB1bBFeTEKaZK_EEv6Wg7aOhRjY1KIeg%24
[8]
https://urldefense.us/v3/__http://scholar.google.es/citations?user=iHJHarsAAAAJ&hl=en__;!!G_uCfscf7eWS!YcH4m3HebQYUf6-qjgbxGkZpRVk1Pi9N5edx4vISVUB77d51qfEJrhAbbgsB1bBFeTEKaZK_EEv6Wg7aOhStu_U_Qg%24
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