Installing ISOLDE in old ChimeraX version

[nicolas.floquet@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.18362
ChimeraX Version: 0.9 (2019-01-15)
Description
(Describe the actions that caused this problem to occur here)
install of the ISOLDE plugin in chimeraX

Log:
Startup Messages  
---  
note | Traceback (most recent call last):  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 338, in __init__  
  
self.init_available_from_cache(logger)  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 449, in
init_available_from_cache  
  
abc.load_from_cache()  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\available.py", line 64, in load_from_cache  
  
b = _build_bundle(d)  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\available.py", line 249, in _build_bundle  
  
keywords = _extract_extra_keywords(keywords)  
  
File "C:\Program Files\ChimeraX\bin\lib\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: 0.9 (2019-01-15)  
How to cite UCSF ChimeraX  
Downloading bundle ChimeraX_ISOLDE-1.0b3-cp37-cp37m-win_amd64.whl  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 384, in download_finished  
session=self.session)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 605, in install_bundle  
results = self._pip_install(bundle, per_user=per_user, reinstall=reinstall)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 901, in _pip_install  
results = self._run_pip(command)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 919, in _run_pip  
output = cp.stdout.decode("utf-8")  
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa0 in position 46:
invalid start byte  
  
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa0 in position 46:
invalid start byte  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 919, in _run_pip  
output = cp.stdout.decode("utf-8")  
  
See log for complete Python traceback.  
  
Downloading bundle ChimeraX_ISOLDE-1.0b3-cp37-cp37m-win_amd64.whl  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 384, in download_finished  
session=self.session)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 605, in install_bundle  
results = self._pip_install(bundle, per_user=per_user, reinstall=reinstall)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 901, in _pip_install  
results = self._run_pip(command)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 919, in _run_pip  
output = cp.stdout.decode("utf-8")  
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa0 in position 46:
invalid start byte  
  
UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa0 in position 46:
invalid start byte  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 919, in _run_pip  
output = cp.stdout.decode("utf-8")  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 431.60
OpenGL renderer: GeForce GTX 1070/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

[Tristan Croll]

Hi Nicolas,

You'll need to update your ChimeraX installation to version 0.93 (specifically that version) in order to install ISOLDE. I should have a new release for ChimeraX 1.0 in a few weeks.