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Hi R,
Thank you very much! We are consulting w/ EXPANSE's IT support staff over this
question.
Sincerely,
Yilei
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of fsbuild
<fsbu...@contbay.com>
Sent: Thursday, January 11, 2024 8:29 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Cc: MacKelfresh, Andy <amackelfr...@health.ucsd.edu>
Subject: Re: [Freesurfer] Trouble with ssh tunneling & Freeview
External Email - Use Caution
A remote connection working to display images from the glxgears or xeyes
commands run on the linux host forwarded to your local machine does not mean
Freeview graphics will do the same. If Freeview still displays an empty or
black screen, then there could be issues with OpenGL graphics running on or
being sent from the linux host. The system requirements for Freesurfer
include the following for running Freeview,
Graphics card: 3D graphics card with its own graphics memory & accelerated
OpenGL drivers
Updating the OpenGL drivers on the linux host will sometimes enable Freeview to
display images remotely. My understanding is Linux servers need Mesa packages
installed to support newer versions of OpenGL. If the Freesurfer Debian or RPM
package installer was used to install the Freesurfer distribution on the Linux
host, then at least some of those packages should now be installed, i.e., we do
not recommend using the tar archive to “install” Freesurfer. We don’t know how
EXPANSE installs/maintains Freesurfer or what their servers support for
graphics hardware.
GLX is the X-windows extension for OpenGL graphics that can be tunneled thru a
remote SSH connection. But GLX may not work with the newer versions of OpenGL
over ssh. A workaround for this is to install and use VirtualGL on the Linux
host. If VirtualGL is supported/installed on EXPANSE, try prefacing the
freeview command with “vglrun” - see MailScanner has detected a possible fraud
attempt from "secure-web.cisco.com" claiming to be
https://secure-web.cisco.com/1PBuCZBvyNTXLnBAbUm04Q7YJLh_rdLhcjeVJgTzMWz_9DaAdOxlg1O81nN6p-7mNTEv-I1HRuKCflsfgqSht95jDeRn6bRH_k-cdc4Y-oP2HmOm4teBxG2aZbc-kh-PPcGe0hurDSJGbNY6DuMkY8LMVME-rpQEWHVKqViK5yJbNlK2XzcAmKKHwtthNPKbYFlcUVyH3ZRlnnOn689GjRtD7IcXO8unJjAk_EURa9I5eU6kKi6bKk0wFj4ZrSRbHEw6c2QOFQH3acnTjumVk9JhmCsLl0MDzNBntdqTPNva36cA8nUHJZcEv3Ou0Wg8NdM7Ce7UfNH8CCfw8Wmsl_g/https%3A%2F%2Fwww.starnet.com%2Fhelp%2Fvirtualgl<https://secure-web.cisco.com/1LbpWT4MUcd6pAHWgpXnVTroDcuB2zS_LVJNf1WfmO6zFE9dX9nOEWUajd1vopUK4BX7U--S9A5CXHv902f6e_XdsjjeRrMdg7KtvHRZWsWyCV3A8HDNGoFKHJZ_ap5k_fbWgN3jWExYpfDtAqWXJT_Z-03_pUbAONIPVO_cEhbW3S-QSjYQ_NVd6cu4kMIDKJnC_mzNI2jnmoQgvQK3i9WigsJgYXTnmxyWq1UUi64DNW0J9L_pvHYuve5NfQKwfKNPSutj1Gl-dHGqdW8ZrwkqZzWbi9ilSP1riQRLlgZU_mmCDKycsz32ukwU9OBRTyFLbihbBwG0UKBkmGBR_kQ/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fsecure-web.cisco.com%2F10kzDiIcCSK5wSi3KZ4WHry8djBXAuam589oKZqs5TvrpZwtx_bg2pMLPYhP8Jy_MCc-EzDmY-dqikD_6634fXGIuWxPmIpVKc_7FvQJ1WLhxdWKQNREcPKVjjXtooJBwDbQMYGNkRFTt8kV6opy3zDRKCw2VFxn2ADZvwE-CJh_5FiVuijgz3-BKzUFkbC6C6v0BjwjdzAd3rvsTA-OMSKycamq6dtAADv6xzHGy1pd8-jWOBWz55-o6eUCbotpP3Xjkaj44Yj6JNn9W87mEonAk4nFRD7f8ZUJdi0BwhynYiOrU-XXN9NEleN4SBmflmdoT6sWwWvQHcooLyMlnww%2Fhttps*3A*2F*2Fwww.starnet.com*2Fhelp*2Fvirtualgl__;JSUlJSU!!LLK065n_VXAQ!kGlwFB8W5ycD4gdiSq6pd5hfMkIurnTmY-rH3QFV37h8kuxu3JWszagwT1HYSwFxaGy9x2-UrdzlG4wSETpL$>.
We use VirtualGL and graphics acceleration on a few Linux workstations to
accommodate Freeview running on Linux and viewing its 3D graphics thru a remote
VPN connection.
XQuartz on the Mac is the equivalent of X-Windows on Linux. The Mac should be
using Xquartz 2.8.2 or newer for use with the Freesurtfer 7.4.X releases. I
think X-Quartz will open automatically to view X-Windows based graphics on the
Mac.
If the EXPANSE linux machines are setup to support remote connections to view
3D X-windows graphics then the IT support staff will know about the options
above. File/open a ticket with them, ask them what they support, and how to
setup your environment. If they do not support it, an alternative is to
install Freesurfer on your Mac and download/copy over the data to view with
Freeview.
- R.
On Jan 11, 2024, at 14:18, Dong, Yilei <yid...@health.ucsd.edu> wrote:
External Email - Use Caution
Hi Freesurfer team,
I have Freesurfer installed on UCSD's Expanse HPC, which uses the Rocky Linux 8
operating system. Whenever we try to do ssh tunneling and more specifically,
logging into our HPC via ssh -X to open up Freeview's GUI, it always aborts.
Prior to logging into my HPC from my Mac laptop's terminal, I always open up
XQuartz. Another colleague of mine has also encountered similar issues, where
they have managed to get X11 and Xeyes to run, but also Freeview's window keeps
aborting.
We have also tried to follow instructions from the following links when it
comes to getting ssh tunneling to work correctly in hopes of making Freeview's
GUI pop up:
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com"
claiming to
behttps://http://secure-web.cisco.com/1Ep0hZW1v0YhStTn91K4nrB82F8KY9ZlSfLdDkG341gyj1fqlmuYrrSUEGl8H_FDp5N4lfLUUiiXjUQIKF5Azi8fhPKpr4_mJQ_ftK0sAglZXZoYWgOAjbiA1YJysW40UtgUXEh3iq-_9A1IXGzk-r7_sq77kHX9dbOwUUIlH80RE9HtoOgfdewNZ5MgvcKjIMBYB5enhsfobFYFuop_mtRxe6sPo0aI164kznzmKgmCTYFYFpOTwak7Hu1oNXBoS-PNjjkrOXrC01ZLzAcVBan20dKJiYolxxcu4p1z1ay1uBTzXEG0e5i3AsE-_iSMh8oNbR68Y0O9R92T5v9LmRw/http%3A%2F%2Fwww.nmr.mgh.harvard.edu%2Fmartinos%2FuserInfo%2Fcomputer%2FremoteAccess.php%23graphics<https://secure-web.cisco.com/1cTBwiJDPQaF5QchaXZ0TVUv892OY_S9vDfvDl8A7DtSsAVR-fzaAXtCp_OcjKPIuymbLe2-W0KvuoyxPXAO8o5cpIlIKlXkGDnJZ0zHnzzGF70JL3fk2Nz0qasxlUm2OK9uJr_bI6xVoxtu2nX-LOXDqqEeI7b4wGiNgj5qxAq5eT8UPCZC-gdettLno1TbJOqm1j54-KxVswU9XUc3y-bJ1s8Rl_0TP4SbcTpUgtl5daFJPW050p-I8xwZN5eW7tTrt8eUdgDiWqPG5tCG3LvfQiO2lWeHrjFdxFq9WByo3b5X-wH2S8MEuxpyJLWhyGhCzq6G5hc8xzJ-UVGyaRA/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fsecure-web.cisco.com%2F1R4ZWuowqG86V3YyoRGTRpJOHdknCViNdSnswxzgoNUJh-dzq8lXFWFrewhCa7KLVpJHMKXfgug_DSvbicGZ_4u4LWCrOmZq8ng3vJa2BzqWilNjwGC-Bg1QqScMvoJJdK26Y2KvpsyEDuTtvsMtfZoUuganA0x800M_z143jJ277akc3YQ3XUe_8JpUHFgBOVk_U05_AmkAlzEnn_U52evlBt3v5lyd2qf8619IHuWKOvGbUxCfN8sGJ9mb1Es_iKmvsWSaM_kx1bDjqNxCR9rjhSx0qG_5pKUvFBy8nsbCYcx2p-6FjhM493rdU4vMH%2Fhttps*3A*2F*2Fwww.nmr.mgh.harvard.edu*2Fmartinos*2FuserInfo*2Fcomputer*2FremoteAccess.php*23graphics__;JSUlJSUlJSU!!LLK065n_VXAQ!kGlwFB8W5ycD4gdiSq6pd5hfMkIurnTmY-rH3QFV37h8kuxu3JWszagwT1HYSwFxaGy9x2-UrdzlG7rCjVmD$>
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com"
claiming to be
https://secure-web.cisco.com/1Hs3MGtCZW8l_nAGQRzjXj9-KeyvjdqTa7e_zeBNjuCNTVfKpLnc24paXmgd3W__whFnJyWpgb6SwuDUpYimFExp94V2obXCg4Ld3n4iFYyHa33fkzO5h9n0b_GTHiSzIVwZVpTzjkMAJx9-Eqn5uKJOxWuGXQ4ABzDUKPBVIiG4bdCdYpRywGq4Qb0_1Hfg_89kt3oXURoPOt_1JHqHZdTR-V926UEJzyqjY4NSf65Ld2vwXyse8ISZLV4yO_JMmIuG1qVuFZuxLpzJsW0RhPqv8zJPs6d628qJbCxH6_S_Q3JlN0z-CvQqc29zVOSBYTlY-RM9L49-X6uXa0sU0ng/https%3A%2F%2Fsurfer..nmr.mgh.harvard.edu%2Ffswiki%2FRemoteAccess<https://secure-web.cisco.com/19fSsdVIZ329BstwbjVp1VB7rfQ1p2g3XNsdHvYHm1hcnQJIph7ybHS1EfXJNq6fZ3AUEPpTSwB2MrOLxYIYKeIOFkn3I8r2VHpyEz9CDZ1ux1r3K2322cYT_ICg3KyTEMxqX8NGref792oikBOQLuXpGx8rSyYNCD3Z-kgWkenEV-jRTI22aqHAKcnoUxv9xHDkR2-lddDSyQMrQHehTh30vSIum7hPc6sAPvVZrxcPghUZPtuyiaXAdb2h3qK6NrcQKqngU8ifj5acJYl0x1_OnZHtsiL06aMirp-jADBi95FM53iibeOli6hXGVITIAbWlNyY8TckT4Ehx2nKilw/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fsecure-web.cisco.com%2F1n_nrksVR91kPB04lGzr6COj_EYtJE9nZ9kVxcDWeDscsOzvYeGCCPT4t92zBd9yTjpcUwszme_vKbFhomviJ4O3Tt_bG2UxEwv9b3QcKztZM1vSrEzXFkXAfq7_IBbnjfj3acA3VU5oCkWdDpU_lQ23fTceaPH54gYtYMeWZmhROyh2g6y5JhWFHeKAbZaNbWxshlk9mZC6aveKIJi4nKyfnN2J_SXoXarWW_6Zy7RloE8UbC1ZCpcJS4DiREwXLjqhAcM74FUzRhmnFgclciHJtNiquU_rhoK3xFR8V8wl7J7bu-j1HlM78q6yDn5WG%2Fhttps*3A*2F*2Fsurfer..nmr.mgh.harvard.edu*2Ffswiki*2FRemoteAccess__;JSUlJSU!!LLK065n_VXAQ!kGlwFB8W5ycD4gdiSq6pd5hfMkIurnTmY-rH3QFV37h8kuxu3JWszagwT1HYSwFxaGy9x2-UrdzlG-5nLQ03$>.
If we operate from a Mac computer, is it better to use a VNC or XQuartz for ssh
tunneling? In addition, can we find an error log in Freesurfer's directory to
find out exactly why Freeview keeps aborting in our circumstance?
Thank you.
Sincerely,
Yilei
<Screen Shot 2024-01-11 at 11.01.27
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MailScanner has detected a possible fraud attempt from "secure-web.cisco.com"
claiming to be
https://secure-web.cisco.com/1faXa85PVUxPcNmGtR8HU4eaKKn5Zvz3kGu5h2-vuvsy2LP_sBgP1iUuTy7M_mtBeKfrYuatffCsXIfHN_kkULsewo6FNjoZYbUIqbXHk_BpmeSQuynmG3CFD1xIQf0cA7GCXWsHqO9Mi-IflM5-CwrLVrmauhYNxotMdvop4Oyblx9o9DtaLCfpju0yWI2ELSH_byK-wCapz-vF8wCu9DlZA-38Fao3GYnytWyHTw4-Lq5HafDBIoLwOcupbf8poSnbBEP6Yd5xaOGJIQ_trOBt67U6MeNkhyjhhoXxomtq1no9jr3vaF7ALmH6litJcKg0ZQVS38jqMxn0mun-tiQ/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer<https://secure-web.cisco.com/1RBDZYaDIdp_pP9G8lm2IPm-vs87zNdQhCCckctOH6cIOR8sszW4p-SwHrRsuK1wNz426T9vVRcaXJGZzwFBfiNwPoHOHONZv69PzIo4uUCoXPHk86qVC6kb81Xcjz3TY3jQov1Pzkde1m9iGqyvPfMOW4uRxcYWkaxYLfcx3-jhSGvZ3VB7nqYMse0bNublO-9leNWkZiLjTsXQiyqJ3_Mcmtv9WpAPYNjNKD5oGZWhdb3xlFFcRas8lMTo0V_UyE_aol-6rPU4AStK8pxRc12ecVv5hxNQSRiInKbSpu5kGdbXFKu1gGETudL8RPVyNzy2voGPXeltsiQb1UAiGag/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fsecure-web.cisco.com%2F1oRAi904qpnmB7H183lf0fvtulvM28NJWJqgmJIsNkt7zxbVFjpYIhy8QG4tD9lmK62N1_2FuapZsSZUyneheakxCLy5TKEOhR8t43P2GshoQ8O-j3sefIABInpV_BKAI-QY67qbKQs4OMK9Q8ju5VtVLMWRCZ6C3HSvEVtfY5FbQYLy8jENUcZ_hOqNkVHxJsDunx8oTXC520KmlsIslZuqdItx1BNlcoD_KRWuz-Rk8oT3xX8KtkOMhz7If_T1ysuE4Nfoe8EzszDb-TwwpmJQjfOLJHp743yF8nc6YiM7qurGjUJp4UZLt8wPu-TVwR_6kz6eJYZMRK3sVQKvpQQ%2Fhttps*3A*2F*2Fmail.nmr.mgh.harvard.edu*2Fmailman*2Flistinfo*2Ffreesurfer__;JSUlJSUl!!LLK065n_VXAQ!kGlwFB8W5ycD4gdiSq6pd5hfMkIurnTmY-rH3QFV37h8kuxu3JWszagwT1HYSwFxaGy9x2-UrdzlG_dnGcjl$>
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