I am getting the same issue
Loaded modules: VirtualGL, Pango, VMD-1.9.3 - all built via easyBuild.
xfce4-terminal -e ‘vglrun vmd’ -T ‘VMD Terminal’ --disable-server
Failed to connect to session manager: Failed to connect to the session manager: SESSION_MANAGER environment variable not defined
Cleaning up…
Wondering if anyone has come up with anything to solve this yet.
If I only run interactively via loaded VMD module, I am able to get VMD GUI via X11. However, if I the same VMD command in OOD script then I get X11 composite is enabled warning and program quits. Previously, I had success running MATLAB and ParaView on OOD via xfce4 without vglrun. Full output.log below:
Setting VNC password…
Starting VNC server…
WARNING: compute-3-28.saber:1 is taken because of /tmp/.X1-lock
Remove this file if there is no X server compute-3-28.saber:1
Desktop ‘TurboVNC: compute-3-28.saber:2 (himanshu)’ started on display compute-3-28.saber:2
Log file is vnc.log
Successfully started VNC server on compute-3-28.saber:5902…
Script starting…
Starting websocket server…
The system default contains no modules
(env var: LMOD_SYSTEM_DEFAULT_MODULES is empty)
No changes in loaded modules
- xfwm4 --compositor=off --daemon --sm-client-disable
WebSocket server settings:
- Listen on :28034
- Flash security policy server
- No SSL/TLS support (no cert file)
- Backgrounding (daemon)
Scanning VNC log file for user authentications…
Generating connection YAML file…
(xfwm4:54961): GLib-CRITICAL **: 21:11:56.240: g_str_has_prefix: assertion ‘prefix != NULL’ failed
(xfwm4:54961): xfwm4-WARNING **: 21:11:56.275: The property ‘/general/double_click_distance’ of type int is not supported
- xsetroot -solid ‘#D3D3D3’
- xfsettingsd --sm-client-disable
- xfce4-panel --sm-client-disable
(xfsettingsd:54978): GLib-CRITICAL **: 21:11:56.738: g_str_has_prefix: assertion ‘prefix != NULL’ failed
(xfsettingsd:54978): GLib-GObject-CRITICAL **: 21:11:56.739: g_value_get_string: assertion ‘G_VALUE_HOLDS_STRING (value)’ failed
(xfsettingsd:54978): GLib-GObject-CRITICAL **: 21:11:56.740: g_value_get_string: assertion ‘G_VALUE_HOLDS_STRING (value)’ failed
Currently Loaded Modules:
- libpciaccess/0.14-GCCcore-7.3.0
- libunwind/1.2.1-GCCcore-7.3.0
- VirtualGL/2.6.1-foss-2018b
- binutils/2.28-GCCcore-6.4.0
- numactl/2.0.11-GCCcore-6.4.0
- hwloc/1.11.7-GCCcore-6.4.0
- GCC/6.4.0-2.28
- OpenMPI/2.1.1-GCC-6.4.0-2.28
- FFTW/3.3.6-gompi-2017b
- gompi/2017b
- OpenBLAS/0.2.20-GCC-6.4.0-2.28
- ScaLAPACK/2.0.2-gompi-2017b-OpenBLAS-0.2.20
- expat/2.2.4-GCCcore-6.4.0
- bzip2/1.0.6-GCCcore-6.4.0
- libpng/1.6.32-GCCcore-6.4.0
- freetype/2.8-GCCcore-6.4.0
- fontconfig/2.12.4-GCCcore-6.4.0
- xorg-macros/1.19.1-GCCcore-6.4.0
- libffi/3.2.1-GCCcore-6.4.0
- XZ/5.2.3-GCCcore-6.4.0
- libxml2/2.9.4-GCCcore-6.4.0
- gettext/0.19.8.1-GCCcore-6.4.0
- PCRE/8.41-GCCcore-6.4.0
- util-linux/2.31-GCCcore-6.4.0
- GLib/2.53.5-GCCcore-6.4.0
- pixman/0.34.0-GCCcore-6.4.0
- cairo/1.14.10-GCCcore-6.4.0
- HarfBuzz/1.7.1-foss-2017b
- Pango/1.41.0-foss-2017b
- Tcl/8.6.7-GCCcore-6.4.0
- Tk/8.6.7-foss-2017b
- GMP/6.1.2-GCCcore-6.4.0
- nettle/3.3-GCCcore-6.4.0
- X11/20171023-GCCcore-6.4.0
- libdrm/2.4.88-GCCcore-6.4.0
- ncurses/6.0-GCCcore-6.4.0
- zlib/1.2.11-GCCcore-6.4.0
- LLVM/5.0.0-foss-2017b
- foss/2017b
- Mesa/17.2.5-foss-2017b
- libGLU/9.0.0-foss-2017b
- GCCcore/6.4.0
- NASM/2.13.01-GCCcore-6.4.0
- libjpeg-turbo/1.5.2-GCCcore-6.4.0
- xprop/1.2.2-GCCcore-6.4.0
- FLTK/1.3.4-foss-2017b
- libreadline/7.0-GCCcore-6.4.0
- SQLite/3.20.1-GCCcore-6.4.0
- Python/2.7.14-foss-2017b
- Szip/2.1.1-GCCcore-6.4.0
- HDF5/1.10.1-foss-2017b
- cURL/7.55.1-GCCcore-6.4.0
- netCDF/4.5.0-foss-2017b
- Yasm/1.3.0-GCCcore-6.4.0
- x264/20170721-GCCcore-6.4.0
- x265/2.6-GCCcore-6.4.0
- LAME/3.100-GCCcore-6.4.0
- FFmpeg/3.4-GCCcore-6.4.0
- LibTIFF/4.0.9-GCCcore-6.4.0
- Ghostscript/9.22-GCCcore-6.4.0
- JasPer/2.0.14-GCCcore-6.4.0
- LittleCMS/2.8-GCCcore-6.4.0
- ImageMagick/7.0.7-15-GCCcore-6.4.0
- ACTC/1.1-GCCcore-6.4.0
- VMD/1.9.3-foss-2017b-Python-2.7.14
- export VMDOPTIXDEVICEMASK=0x1
- VMDOPTIXDEVICEMASK=0x1
- xfce4-terminal -e ‘vglrun -c proxy vmd’ -T ‘VMD Terminal’ --disable-server
Failed to connect to session manager: Failed to connect to the session manager: SESSION_MANAGER environment variable not defined
(xfce4-terminal:54990): Gtk-WARNING **: GModule (/usr/lib64/gtk-3.0/3.0.0/immodules/im-ibus.so) initialization check failed: GLib version too old (micro mismatch)
(xfce4-terminal:54990): Gtk-WARNING **: Loading IM context type ‘ibus’ failed
Cleaning up…
Killing Xvnc process ID 54916
xfwm4: Fatal IO error 11 (Resource temporarily unavailable) on X server :2.
xfce4-panel: Fatal IO error 11 (Resource temporarily unavailable) on X server :2.
xfsettingsd: Fatal IO error 11 (Resource temporarily unavailable) on X server :2.