Hi Gleb,
Very funny! I have fixed the bug reporting error. It only happened when you have an http proxy set. I guess no one tried reporting a bug using an http proxy before.
Tom
On Apr 16, 2019, at 9:40 AM, James Starlight wrote:
Elaine,
i have got a bug while trying to report a bug :-)
Failed to send bug report. Error while sending follows: Traceback (most recent call last): File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/bug_reporter/bug_reporter_gui.py", line 231, in submit errcode, errmsg, headers, body = post_multipart_formdata(BUG_HOST, BUG_SELECTOR, fields) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/bug_reporter/post_form.py", line 36, in post_multipart_formdata h = HTTPConnection(realhost) UnboundLocalError: local variable 'HTTPConnection' referenced before assignment
вт, 16 апр. 2019 г. в 18:11, Elaine Meng meng@cgl.ucsf.edu:
Hi Gleb/James, You should use the Report a Bug dialog, not this e-mail list, when you have a bug. Both ChimeraX and Chimera have this dialog in their Help menus, and it is also a button on the error dialog in most cases. Best, Elaine
Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Apr 16, 2019, at 1:30 AM, James Starlight jmsstarlight@gmail.com wrote:
Dear ChimeraX users!
I am using a cxc script together with the following options to run ChimeraX in no-gui mode. chimerax-daily --offscreen --nogui test.cxc
here is my scrript
# chimeraX script windowsize 800 600 open ./test.pdb view; zoom 1.0; turn x 90; turn z -80;
preset 'overall look' publication color byattribute bfactor palette rainbow range 2,100
# make info 2dlab create title text "B-factors for" color red font gothic xpos .04 ypos .90 size 30 # options for light light depthcuestart .4 depthcueend .8; lighting full
save image ./test.png format png width 800 height 600 supersample 4 transparentBackground false
This script works fine with GUI producing very good picture but with the --nogui it gave me error:
Traceback (most recent call last): File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/ChimeraX_main.py", line 699, in init commands.run(sess, 'open %s' % arg) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/run.py", line 31, in run results = command.run(text, log=log) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/cli.py", line 2616, in run result = ci.function(session, **kw_args) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/open.py", line 41, in open from_database=from_database, ignore_cache=ignore_cache, **kw)) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/open.py", line 117, in open models = handle_unknown_kw(session.models.open, paths, format=format, name=name, **kw) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/open.py", line 62, in handle_unknown_kw return f(*args, **kw) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/models.py", line 601, in open session, filenames, format=format, name=name, **kw) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/io.py", line 467, in open_multiple_data models, status = open_data(session, fspec, format=format, name=name, **kw) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/io.py", line 421, in open_data models, status = open_func(*args, **kw) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/scripting.py", line 115, in open_command_script run(session, text) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/run.py", line 31, in run results = command.run(text, log=log) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/cli.py", line 2616, in run result = ci.function(session, **kw_args) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/commands/save.py", line 61, in save fmt.export(session, filename, fmt.nicknames[0], **kw) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/io.py", line 203, in export result = self.export_func(session, path, **kw) File "/usr/lib/ucsf-chimerax-daily/lib/python3.7/site-packages/chimerax/core/image.py", line 43, in save_image raise LimitationError("Unable to render images to save them") chimerax.core.errors.LimitationError: Unable to render images to save them
could you help me how it may be fixed?
Thank you in advance!
Gleb
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