On Wed, Jul 10, 2024 at 9:11 AM Greg Couch <gregc@cgl.ucsf.edu> wrote:

Which web page has the typo in it? I'm only finding 'flatpak run ChimeraX'.   Also, for 'flatpak run' you shouldn't need the --user option. In Flatpak 1.10, it is documented to look in the per-user and system locations, so it should find the user version first. Which version of flatpak are you using and on which version of Linux?

And for the record, we do not support NICE EnginFrame Views Views. We expect ChimeraX to run directly on the computer with the graphics card. But Georg Kempf reported a workaround for NICE DCV in https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/message/TDBNFXUCLSFX6FTJ7NDVGK46XV5CNGNH/. Perhaps a similar fix will work for you?

    -- Greg

On 7/9/2024 10:20 AM, Roden Deng Luo wrote:

Hi Greg,

Thanks very much! Following the instructions, I did get ChimeraX installed. (This might be a global setting for flatpak that I am not aware of. I am a first-time user of Flatpak.)

On the website, there is the following command for running.

flatpak run edu.ucsf.rbvi.Chimerax

The last character should be capitalized in my case. And I need to add "--user" for non-sudo.

=======

The part below might go beyond your support. But if you do have some hints, please kindly let me know. After I corrected the naming, I still got errors, and the graphics did not look correct (attached). I was running the command in a NICE EnginFrame Views (https://www.ni-sp.com/products/enginframe-views/) environment.

(base) [luod@rsws06 ~]$ flatpak run edu.ucsf.rbvi.Chimerax
error: While opening repository /var/lib/flatpak/repo: opening repo: opendir(/var/lib/flatpak/repo): No such file or directory
(base) [luod@rsws06 ~]$ flatpak run edu.ucsf.rbvi.ChimeraX
error: While opening repository /var/lib/flatpak/repo: opening repo: opendir(/var/lib/flatpak/repo): No such file or directory
(base) [luod@rsws06 ~]$ flatpak run --user edu.ucsf.rbvi.Chimerax
error: app/edu.ucsf.rbvi.Chimerax/x86_64/master not installed
(base) [luod@rsws06 ~]$ flatpak run --user edu.ucsf.rbvi.ChimeraX
F: Can't get document portal: GDBus.Error:org.freedesktop.DBus.Error.NoReply: Message recipient disconnected from message bus without replying
NOTE: available bundle cache has not been initialized yet
WARNING: WebEngineContext is used before QtWebEngineQuick::initialize() or OpenGL context creation failed.
WARNING: QGLXContext: Failed to create dummy context
WARNING: QRhiGles2: Failed to create temporary context
WARNING: QRhiGles2: Failed to create context
WARNING: Failed to create QRhi for QBackingStoreRhiSupport
ERROR: Could not create OpenGL context
WARNING: QRhiGles2: Failed to create temporary context
WARNING: QRhiGles2: Failed to create context
WARNING: Failed to create QRhi for QBackingStoreRhiSupport
WARNING: QQuickWidget: Failed to get a QRhi from the top-level widget's window
WARNING: QQuickWidget::resizeEvent() no QRhi
WARNING: QRhiGles2: Failed to create temporary context
WARNING: QRhiGles2: Failed to create context
WARNING: Failed to create QRhi for QBackingStoreRhiSupport
WARNING: QQuickWidget: Failed to get a QRhi from the top-level widget's window

Thanks,

Roden

On Tue, Jul 9, 2024 at 2:44 AM Greg Couch <gregc@cgl.ucsf.edu> wrote:

As noted in the flatpak instructions, you need to configure the per-user
flathub repository first.   That way the correct runtime will be
installed when installing ChimeraX. So do:

> flatpak remote-add --user --if-not-exists flathub
> https://urldefense.com/v3/__https://dl.flathub.org/repo/flathub.flatpakrepo__;!!Nmw4Hv0!xh_nMcRlvdKtesw4uwRea8sVNzkrMi3MXAap-wuHHCTDcPngEB2jgtLBxfm9raZkYR-ehkK4jisPLLD2esB8wQ$
then do:

> flatpak install --user ChimeraX.flatpak
I'll rework the instructions to make that more obvious.

HTH,

   Greg

On 7/8/24 03:49, Roden Deng Luo via ChimeraX-users wrote:
> Dear ChimeraX Team,
>
> The install notes for all the current distributions for the Linx
> system require sudo. I wonder is it possible without sudo?
>
> On Rocky Linux VERSION 9.4 (Blue Onyx), I tried the following.
>
> $ flatpak --user install ChimeraX-1.8.flatpak
> error: The application edu.ucsf.rbvi.ChimeraX/x86_64/master requires
> the runtime org.freedesktop.Platform/x86_64/23.08 which was not found
>
> $ rpm -ivh ucsf-chimerax-1.8-1.el9.x86_64.rpm
> error: Failed dependencies:
> fftw-libs-single is needed by ucsf-chimerax-1.8-1.el9.x86_64
> mesa-libOSMesa is needed by ucsf-chimerax-1.8-1.el9.x86_64
> sqlite is needed by ucsf-chimerax-1.8-1.el9.x86_64
> xcb-util-cursor is needed by ucsf-chimerax-1.8-1.el9.x86_64
> xcb-util-image is needed by ucsf-chimerax-1.8-1.el9.x86_64
> xcb-util-keysyms is needed by ucsf-chimerax-1.8-1.el9.x86_64
> xcb-util-renderutil is needed by ucsf-chimerax-1.8-1.el9.x86_64
> xcb-util-wm is needed by ucsf-chimerax-1.8-1.el9.x86_64
>
> Thanks,
> Roden
>

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