[chimerax-users] chimeraX and nice dcv

Mon Apr 3 16:44:01 PDT 2017

Hi Florian,
	We don’t have any experience using Nice DCV, but googling around for similar problems seems to imply that it’s a problem starting the Chromiium backend to ChimeraX (used to render the HTML in various widgets, such as the log).  As per this thread:

[SOLVED] Chromium - Unable to get the user data directory / Newbie Corner / Arch Linux Forums <https://bbs.archlinux.org/viewtopic.php?id=217181>

you should check that your $HOME and $XDG_CONFIG_HOME environment variables aren’t set to anything weird, and that there are no permissions settings on your home directory or the ~/.config directory that would prevent writing or creating files.
	Is there any free version of Nice DCV or only a demo version?

—Eric

	Eric Pettersen
	UCSF Computer Graphics Lab


> On Apr 3, 2017, at 5:47 AM, Beck, Florian <fbeck at biochem.mpg.de> wrote:
> 
> Hi,
> 
> did anyone use chimerX with nice dcv remote visualisation ?
> 
> 
> I tried it and I got the following error:
> 
> Could not connect to DCVD
> [13619:13619:0403/144451:FATAL:zygote_host_impl_linux.cc(182)] Check failed: ReceiveFixedMessage(fds[0], kZygoteBootMessage, sizeof(kZygoteBootMessage), &boot_pid). 
> #0 0x2ada6e6ec00e <unknown>
> #1 0x2ada6e6ff0ce <unknown>
> #2 0x2ada6ec92e33 <unknown>
> #3 0x2ada6ec91b2b <unknown>
> #4 0x2ada6ec920ce <unknown>
> #5 0x2ada6ed09a69 <unknown>
> #6 0x2ada6eb13373 <unknown>
> #7 0x2ada6d5b1d32 <unknown>
> #8 0x2ada6d5b2f45 <unknown>
> #9 0x2ada6d555345 QtWebEngineCore::BrowserContextAdapter::BrowserContextAdapter()
> #10 0x2ada6cc8b75a QWebEngineProfile::QWebEngineProfile()
> #11 0x2ada6ca4cfc9 sipQWebEngineProfile::sipQWebEngineProfile()
> #12 0x2ada6ca4d1aa init_type_QWebEngineProfile
> #13 0x2ada6be5061b sipSimpleWrapper_init
> #14 0x2ada01ad1e83 type_call
> #15 0x2ada01a613fb _PyObject_FastCallDict
> #16 0x2ada01b51ae8 call_function
> #17 0x2ada01b5757a _PyEval_EvalFrameDefault
> #18 0x2ada01b5199a _PyEval_EvalCodeWithName
> #19 0x2ada01b5a7b8 _PyFunction_FastCallDict
> #20 0x2ada01a614fe _PyObject_FastCallDict
> #21 0x2ada01a61602 _PyObject_Call_Prepend
> #22 0x2ada01a6129a PyObject_Call
> #23 0x2ada01b56ffb _PyEval_EvalFrameDefault
> #24 0x2ada01b5199a _PyEval_EvalCodeWithName
> #25 0x2ada01b51c37 call_function
> #26 0x2ada01b570d1 _PyEval_EvalFrameDefault
> #27 0x2ada01b5199a _PyEval_EvalCodeWithName
> #28 0x2ada01b5a848 _PyFunction_FastCallDict
> #29 0x2ada01a614fe _PyObject_FastCallDict
> #30 0x2ada01a61602 _PyObject_Call_Prepend
> #31 0x2ada01a6129a PyObject_Call
> #32 0x2ada01ad96e9 slot_tp_init
> #33 0x2ada01ad1e83 type_call
> #34 0x2ada01a613fb _PyObject_FastCallDict
> #35 0x2ada01b51ae8 call_function
> #36 0x2ada01b5757a _PyEval_EvalFrameDefault
> #37 0x2ada01b50ff0 _PyFunction_FastCall
> #38 0x2ada01b5a9e0 _PyFunction_FastCallDict
> #39 0x2ada01a614fe _PyObject_FastCallDict
> #40 0x2ada01a61602 _PyObject_Call_Prepend
> #41 0x2ada01a6129a PyObject_Call
> #42 0x2ada01ad96e9 slot_tp_init
> #43 0x2ada01ad1e83 type_call
> #44 0x2ada01a6129a PyObject_Call
> #45 0x2ada01b56ffb _PyEval_EvalFrameDefault
> #46 0x2ada01b5199a _PyEval_EvalCodeWithName
> #47 0x2ada01b51c37 call_function
> #48 0x2ada01b570d1 _PyEval_EvalFrameDefault
> #49 0x2ada01b5199a _PyEval_EvalCodeWithName
> #50 0x2ada01b51c37 call_function
> #51 0x2ada01b570d1 _PyEval_EvalFrameDefault
> #52 0x2ada01b5199a _PyEval_EvalCodeWithName
> #53 0x2ada01b51f5f PyEval_EvalCodeEx
> #54 0x2ada01a92dae function_call
> #55 0x2ada01a6129a PyObject_Call
> #56 0x2ada01b56ffb _PyEval_EvalFrameDefault
> #57 0x2ada01b5199a _PyEval_EvalCodeWithName
> #58 0x2ada01b51c37 call_function
> #59 0x2ada01b5757a _PyEval_EvalFrameDefault
> #60 0x2ada01b50ff0 _PyFunction_FastCall
> #61 0x2ada01b51efd call_function
> 
> Fatal Python error: Aborted
> 
> Current thread 0x00002ada01821600 (most recent call first):
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/core/ui/widgets/htmlview.py", line 70 in __init__
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/core/ui/widgets/htmlview.py", line 164 in __init__
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/log/tool.py", line 124 in __init__
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/log/tool.py", line 172 in __init__
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/core/tools.py", line 181 in get_singleton
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/log/cmd.py", line 19 in get_singleton
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/log/__init__.py", line 30 in start_tool
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/core/toolshed/__init__.py", line 2051 in start_tool
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/core/tools.py", line 387 in start_tools
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/chimerax/core/tools.py", line 364 in autostart
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/ChimeraX_main.py", line 454 in init
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/site-packages/ChimeraX_main.py", line 643 in <module>
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/runpy.py", line 85 in _run_code
>   File "/fs/gpfs03/lv06/pool/pool-bmapps/hpcl5S12/app/install/CHIMERAX/0.1-alpha1/chimerax/lib/python3.6/runpy.py", line 193 in _run_module_as_main
> Aborted (core dumped)
> 
> best
> 
> Florian
> 
> 
> _______________________________________________
> Chimerax-users mailing list
> Chimerax-users at cgl.ucsf.edu <mailto:Chimerax-users at cgl.ucsf.edu>
> Manage subscription:
> http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users <http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20170403/c69042c6/attachment.html>