У меня есть несколько проблем (см. Сообщения ниже) с запуском стороннего научного программного обеспечения (например, coot, pymol или chimera).
Я использую двоичный файл coot (0.9.5). Chimera - это сборка 1.14 42018. Ubuntu 20.04.2 LTS Gnome. Я использую pymol-open-source от Github
Graphic card: VGA compatible controller: Intel Corporation UHD Graphics 620 (Whiskey Lake)
Model: Intel(R) Core(TM) i7-8565U CPU @ 1.80GHz
. Похоже, есть некоторые проблемы с радужной оболочкой и swrast (см. Сообщение ниже).
Я всегда получаю это сообщение для химеры:
libGL error: MESA-LOADER: failed to open iris: /usr/lib/dri/iris_dri.so: cannot open shared object file: No such file or directory (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri)
libGL error: failed to load driver: iris
libGL error: MESA-LOADER: failed to open iris: /usr/lib/dri/iris_dri.so: cannot open shared object file: No such file or directory (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri)
libGL error: failed to load driver: iris
libGL error: MESA-LOADER: failed to open swrast: /usr/lib/dri/swrast_dri.so: cannot open shared object file: No such file or directory (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri)
libGL error: failed to load driver: swrast
X Error of failed request: BadValue (integer parameter out of range for operation)
Major opcode of failed request: 152 (GLX)
Minor opcode of failed request: 3 (X_GLXCreateContext)
Value in failed request: 0x0
Serial number of failed request: 890
Current serial number in output stream: 891
Я получил это сообщение для пимола:
Qt not available, using GLUT/Tk interface
libGL error: MESA-LOADER: failed to open iris: /usr/lib/dri/iris_dri.so: cannot open shared object file: No such file or directory (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri)
libGL error: failed to load driver: iris
libGL error: MESA-LOADER: failed to open iris: /usr/lib/dri/iris_dri.so: cannot open shared object file: No such file or directory (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri)
libGL error: failed to load driver: iris
libGL error: MESA-LOADER: failed to open swrast: /usr/lib/dri/swrast_dri.so: cannot open shared object file: No such file or directory (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri)
libGL error: failed to load driver: swrast
freeglut Unable to create OpenGL 1.0 context (flags 0, profile 0)
X Error of failed request: BadValue (integer parameter out of range for operation)
Major opcode of failed request: 152 (GLX)
Minor opcode of failed request: 24 (X_GLXCreateNewContext)
Value in failed request: 0x0
Serial number of failed request: 50
Current serial number in output stream: 51
PyMOL: abrupt program termination.
Спасибо за помощь.
lsmod | grep
drm rm_kms_helper 184320 1 i915
syscopyarea 16384 1 drm_kms_helper
sysfillrect 16384 1 drm_kms_helper
sysimgblt 16384 1 drm_kms_helper
fb_sys_fops 16384 1 drm_kms_helper
drm 491520 9 drm_kms_helper,i915
$ glxinfo | grep Vendor
Vendor: Intel Open Source Technology Center (0x8086)
$ lshw -C video
WARNING: you should run this program as super-user.
*-display
description: VGA compatible controller
product: UHD Graphics 620 (Whiskey Lake)
vendor: Intel Corporation
physical id: 2
bus info: pci@0000:00:02.0
version: 00
width: 64 bits
clock: 33MHz
capabilities: vga_controller bus_master cap_list rom
configuration: driver=i915 latency=0
resources: irq:150 memory:9b000000-9bffffff memory:50000000-5fffffff ioport:3000(size=64)
memory:c0000-dffff
$ vainfo
libva info: VA-API version 1.7.0
libva info: Trying to open /usr/lib/x86_64-linux-gnu/dri/iHD_drv_video.so
libva info: Found init function __vaDriverInit_1_7
libva info: va_openDriver() returns 0
vainfo: VA-API version: 1.7 (libva 2.6.0)
vainfo: Driver version: Intel iHD driver for Intel(R) Gen Graphics - 20.1.1 ()
vainfo: Supported profile and entrypoints
VAProfileMPEG2Simple : VAEntrypointVLD
VAProfileMPEG2Main : VAEntrypointVLD
VAProfileH264Main : VAEntrypointVLD
VAProfileH264Main : VAEntrypointEncSliceLP
VAProfileH264High : VAEntrypointVLD
VAProfileH264High : VAEntrypointEncSliceLP
VAProfileJPEGBaseline : VAEntrypointVLD
VAProfileJPEGBaseline : VAEntrypointEncPicture
VAProfileH264ConstrainedBaseline: VAEntrypointVLD
VAProfileH264ConstrainedBaseline: VAEntrypointEncSliceLP
VAProfileVP8Version0_3 : VAEntrypointVLD
VAProfileHEVCMain : VAEntrypointVLD
VAProfileHEVCMain10 : VAEntrypointVLD
VAProfileVP9Profile0 : VAEntrypointVLD
VAProfileVP9Profile2 : VAEntrypointVLD
На уровне пакетов это можно исправить установкой одного пакета:
sudo apt-get install libgl1-mesa-dri
Далее о пакетах:
Pymol установлен в Ubuntu с версией 2.3.0, поэтому его можно установить
sudo add-apt-repository universe
sudo apt-get install pymol