Opened 7 years ago

Closed 7 years ago

#1848 closed defect (not a bug)

Clipper not a supported wheel on this platform

Reported by: chimerax-bug-report@… Owned by: Conrad Huang
Priority: normal Milestone:
Component: Tool Shed Version:
Keywords: Cc: Tristan Croll
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description

The following bug report has been submitted:
Platform:        Linux-4.15.0-46-generic-x86_64-with-debian-stretch-sid
ChimeraX Version: 0.8 (2018-11-28)
Description
(Describe the actions that caused this problem to occur here)

Log:
Startup Messages  
---  
warning | Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/core/toolshed/info.py", line 414, in initialize  
api._api_caller.initialize(api, session, self)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/core/toolshed/__init__.py", line 1198, in initialize  
return cls._get_func(api, "initialize")(session, bi)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/registration/__init__.py", line 41, in initialize  
nag(session)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/registration/nag.py", line 28, in nag  
if not check_registration(logger=session.logger):  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/registration/nag.py", line 49, in check_registration  
return _check_expiration(param, logger)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/registration/nag.py", line 131, in _check_expiration  
expires = datetime.strptime(param["Expires"], TimeFormat)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/_strptime.py", line 565, in
_strptime_datetime  
tt, fraction = _strptime(data_string, format)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/_strptime.py", line 362, in
_strptime  
(data_string, format))  
ValueError: time data 'Tue Apr 14 12:06:50 2020' does not match format '%a %b
%d %H:%M:%S %Y'  
note | Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/__init__.py", line 338, in __init__  
self.init_available_from_cache(logger)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/__init__.py", line 445, in  
init_available_from_cache  
abc.load_from_cache()  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/available.py", line 61, in load_from_cache  
b = _build_bundle(d)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/available.py", line 242, in _build_bundle  
keywords = _extract_extra_keywords(keywords)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/installed.py", line 270, in  
_extract_extra_keywords  
all_kwds = [k.strip() for k in kwds.split(',')]  
AttributeError: 'list' object has no attribute 'split'  
  
UCSF ChimeraX version: 0.8 (2018-11-28)  
How to cite UCSF ChimeraX  

> toolshed show "Remote Control"

xmlrpc server running at 127.0.0.1 on port 42184  

> open /home/ricardo/tilipo33_publicação/dock_files/yasara/5dae.cif

5dae.cif title:  
Kazal type inhibitor from salivary glands of Aedes aegypti mosquito [more
info...]  
  
Chain information for 5dae.cif #1  
---  
Chain | Description  
A B | AAEL006007-Pa  
  
5dae.cif mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
  

> style selAtoms stick

Changed 927 atom styles  

> hide selAtoms ribbons

> style selAtoms stick

Changed 927 atom styles  

> show selAtoms

> toolshed show "Volume Viewer"

> open /home/ricardo/tilipo33_publicação/dock_files/yasara/5dae.pdb

5dae.pdb title:  
Kazal type inhibitor from salivary glands of aedes aegypti mosquito [more
info...]  
  
Chain information for 5dae.pdb #2  
---  
Chain | Description  
A B | kazal domain-containing peptide  
  

> show selAtoms surfaces

> hide #!2.1 models

> hide #!2.2 models

> hide #!2 models

> show #!2 models

> hide #!1.2 models

> hide #!1.1 models

> show #!2.1 models

> show #!2.2 models

> hide #!2.2 models

> hide #!2.1 models

> hide #!2 models

> show #!1.1 models

> hide #!1.1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> show #!1.1 models

> show #!1.2 models

> hide #1.2 target m

> hide #1.1 target m

> close #1.1

> close #1.2

> close #2.1

> close #2.2

> show #!2 models

> hide #!2 models

> show #!2 models

> select #1/A

473 atoms, 439 bonds selected  

> ~select #2

473 atoms, 439 bonds selected  

> select #1

927 atoms, 850 bonds selected  

> select #2

927 atoms, 850 bonds selected  

> ~select #1

927 atoms, 850 bonds selected  

> select #1

927 atoms, 850 bonds selected  

> select #2

927 atoms, 850 bonds selected  

> close #2

> view cofr false

> view orient cofr false

> toolshed show "Cage Builder"

Downloading bundle ChimeraX_Clipper-0.4.0-cp37-cp37m-linux_x86_64.whl  
unloading module chimerax.clipper  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/ui/widgets/htmlview.py", line 362, in download_finished  
session=self.session)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/core/toolshed/__init__.py", line 548, in install_bundle  
results = self._pip_install(bundle, per_user=per_user, reinstall=reinstall)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/core/toolshed/__init__.py", line 842, in _pip_install  
results = self._run_pip(command)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/core/toolshed/__init__.py", line 869, in _run_pip  
raise RuntimeError(s)  
RuntimeError: ERROR:  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/__init__.py", line 338, in __init__  
self.init_available_from_cache(logger)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/__init__.py", line 445, in  
init_available_from_cache  
abc.load_from_cache()  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/available.py", line 61, in load_from_cache  
b = _build_bundle(d)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/available.py", line 242, in _build_bundle  
keywords = _extract_extra_keywords(keywords)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/installed.py", line 270, in  
_extract_extra_keywords  
all_kwds = [k.strip() for k in kwds.split(',')]  
AttributeError: 'list' object has no attribute 'split'  
  
  
ChimeraX_Clipper-0.4.0-cp37-cp37m-linux_x86_64.whl is not a supported wheel on
this platform.  
You are using pip version 18.1, however version 19.0.3 is available.  
You should consider upgrading via the 'pip install --upgrade pip' command.  
  
  
RuntimeError: ERROR:  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/__init__.py", line 338, in __init__  
self.init_available_from_cache(logger)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/__init__.py", line 445, in  
init_available_from_cache  
abc.load_from_cache()  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/available.py", line 61, in load_from_cache  
b = _build_bundle(d)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/available.py", line 242, in _build_bundle  
keywords = _extract_extra_keywords(keywords)  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-  
packages/chimerax/core/toolshed/installed.py", line 270, in  
_extract_extra_keywords  
all_kwds = [k.strip() for k in kwds.split(',')]  
AttributeError: 'list' object has no attribute 'split'  
  
  
ChimeraX_Clipper-0.4.0-cp37-cp37m-linux_x86_64.whl is not a supported wheel on
this platform.  
You are using pip version 18.1, however version 19.0.3 is available.  
You should consider upgrading via the 'pip install --upgrade pip' command.  
  
  
File "/usr/lib/ucsf-chimerax-daily/lib/python3.6/site-
packages/chimerax/core/toolshed/__init__.py", line 869, in _run_pip  
raise RuntimeError(s)  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 384.130
OpenGL renderer: Quadro K4000/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Change History (2)

comment:1 by Eric Pettersen, 7 years ago

Cc: Tristan Croll added
Component: UnassignedTool Shed
Owner: set to Conrad Huang
Platform: all
Project: ChimeraX
Status: newassigned
Summary: ChimeraX bug report submissionClipper not a supported wheel on this platform

comment:2 by Tristan Croll, 7 years ago

Resolution: not a bug
Status: assignedclosed

This is just simple user error. The only people who have access to that wheel right now received the link as part of an email containing clear instructions to use the ChimeraX *daily build*. It’s probably someone attending the workshop I’m at now.

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