id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 1186 ChimeraX startup crash on Ubuntu 16.04 Luca.Jovine@… Greg Couch "{{{ Hello, I’ve been trying to run ChimeraX on one of our machines (Ubuntu 16.04 OS, GeForce GTX 1080 Ti GPUs). If I try launching the stable version (0.6) I get: /usr/local/chimerax$ chimerax-0.6/bin/ChimeraX WARNING: QOpenGLShader::compile(Vertex): failed WARNING: QOpenGLShader::compile(Fragment): failed WARNING: Could not link shader program: """" Fatal Python error: Segmentation fault Thread 0x00007f2f92259700 (most recent call first): File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/ssl.py"", line 631 in read File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/ssl.py"", line 871 in read File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/ssl.py"", line 1009 in recv_into File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/socket.py"", line 586 in readinto File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/http/client.py"", line 258 in _read_status File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/http/client.py"", line 297 in begin File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/http/client.py"", line 1331 in getresponse File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/urllib/request.py"", line 1321 in do_open File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/urllib/request.py"", line 1361 in https_open File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/urllib/request.py"", line 504 in _call_chain File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/urllib/request.py"", line 544 in _open File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/urllib/request.py"", line 526 in open File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/urllib/request.py"", line 223 in urlopen File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/site-packages/chimerax/core/toolshed/available.py"", line 30 in load File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/site-packages/chimerax/core/toolshed/__init__.py"", line 385 in reload_available File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/threading.py"", line 864 in run File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/threading.py"", line 916 in _bootstrap_inner File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/threading.py"", line 884 in _bootstrap Current thread 0x00007f2fdd99a740 (most recent call first): File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/site-packages/chimerax/ui/gui.py"", line 156 in build File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/site-packages/ChimeraX_main.py"", line 565 in init File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/site-packages/ChimeraX_main.py"", line 788 in File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/runpy.py"", line 85 in _run_code File ""/usr/local/ucsf_chimerax/chimerax-0.6/lib/python3.6/runpy.py"", line 193 in _run_module_as_main [1:1:0100/000000.074235:ERROR:broker_posix.cc(41)] Invalid node channel message Segmentation fault (core dumped) /usr/local/chimerax$ whereas if I try the daily 0.7 version (from today): /usr/local/chimerax$ chimerax-0.7/bin/ChimeraX NOTE: Traceback (most recent call last): File ""/usr/local/ucsf_chimerax/chimerax-0.7/lib/python3.6/runpy.py"", line 193, in _run_module_as_main ""__main__"", mod_spec) File ""/usr/local/ucsf_chimerax/chimerax-0.7/lib/python3.6/runpy.py"", line 85, in _run_code exec(code, run_globals) File ""/usr/local/ucsf_chimerax/chimerax-0.7/lib/python3.6/site- packages/ChimeraX_main.py"", line 783, in exit_code = init(sys.argv) File ""/usr/local/ucsf_chimerax/chimerax-0.7/lib/python3.6/site- packages/ChimeraX_main.py"", line 551, in init _xdg.install_if_needed(sess, localized_app_name) AttributeError: module 'chimerax.core._xdg' has no attribute 'install_if_needed' ERROR: AttributeError: module 'chimerax.core._xdg' has no attribute 'install_if_needed' File ""/usr/local/ucsf_chimerax/chimerax-0.7/lib/python3.6/site- packages/ChimeraX_main.py"", line 551, in init _xdg.install_if_needed(sess, localized_app_name) _See log for complete Python traceback._ If you wish to report this error, send mail to [chimerax- bugs@cgl.ucsf.edu](mailto:chimerax-bugs@cgl.ucsf.edu) and describe what you were doing and include a copy of the contents of the log. Don't include any data you wish to remain private since a publicly viewable bug report will be created. /usr/local/chimerax$ …what I am doing wrong? Thanks and best regards, Luca ------------------------------------------------------------------------ Luca Jovine, Ph.D. Professor of Structural Biology & EMBO Member Karolinska Institutet Department of Biosciences and Nutrition & Center for Innovative Medicine Medicinaren 25 Neo Blickagången 16, SE-141 83 Huddinge, Sweden E-mail: luca.jovine@ki.se W3: http://jovinelab.org ------------------------------------------------------------------------ }}} " defect closed major 0.7 Platform nonchimerax all ChimeraX