ISOLDE not compatible with v 0.7?

[gbrandt@…]

Hi. I just downloaded ChimeraX to look at it. I was interested in its ability to generate maps on the fly from mtz files, so I tried to download the ISOLDE plug-in, following this suggestion:

http://plato.cgl.ucsf.edu/pipermail/chimera-users/2018-February/014385.html

When I tried, I got the following error message.

Thanks very much.

gsb


Downloading bundle ChimeraX_ISOLDE-1.0b1-cp36-cp36m-macosx_10_9_x86_64.whl
Traceback (most recent call last):
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/ui/widgets/htmlview.py", line 364, in download_finished
    session=self.session)
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/toolshed/__init__.py", line 528, in install_bundle
    results = self._pip_install(bundle, per_user=per_user, reinstall=reinstall)
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/toolshed/__init__.py", line 730, in _pip_install
    results = self._run_pip(command)
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/toolshed/__init__.py", line 757, in _run_pip
    raise RuntimeError(s)
RuntimeError: Processing /Users/parasites/Downloads/ChimeraX_ISOLDE-1.0b1-cp36-cp36m-macosx_10_9_x86_64.whl
Collecting ChimeraX-Clipper>=0.2 (from ChimeraX-ISOLDE==1.0b1)
  Downloading https://cxtoolshed.rbvi.ucsf.edu/media/chimeraxclipper/releases/0.2.1/ChimeraX_Clipper-0.2.1-cp36-cp36m-macosx_10_9_x86_64.whl (341kB)
Collecting ChimeraX-Core==0.6 (from ChimeraX-ISOLDE==1.0b1)
  Could not find a version that satisfies the requirement ChimeraX-Core==0.6 (from ChimeraX-ISOLDE==1.0b1) (from versions: )
No matching distribution found for ChimeraX-Core==0.6 (from ChimeraX-ISOLDE==1.0b1)
You are using pip version 9.0.3, however version 10.0.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.


RuntimeError: Processing /Users/parasites/Downloads/ChimeraX_ISOLDE-1.0b1-cp36-cp36m-macosx_10_9_x86_64.whl
Collecting ChimeraX-Clipper>=0.2 (from ChimeraX-ISOLDE==1.0b1)
Downloading https://cxtoolshed.rbvi.ucsf.edu/media/chimeraxclipper/releases/0.2.1/ChimeraX_Clipper-0.2.1-cp36-cp36m-macosx_10_9_x86_64.whl (341kB)
Collecting ChimeraX-Core==0.6 (from ChimeraX-ISOLDE==1.0b1)
Could not find a version that satisfies the requirement ChimeraX-Core==0.6 (from ChimeraX-ISOLDE==1.0b1) (from versions: )
No matching distribution found for ChimeraX-Core==0.6 (from ChimeraX-ISOLDE==1.0b1)
You are using pip version 9.0.3, however version 10.0.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.


File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/toolshed/__init__.py", line 757, in _run_pip
raise RuntimeError(s)

See log for complete Python traceback.

If you wish to report this error, send mail to 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.



………………………………...
Gabriel Brandt
Assistant Professor
Department of Chemistry
Franklin & Marshall College
PO Box 3003
Lancaster, PA 17604
ph: 717.358.4846

shipping address:
415 Harrisburg Ave
Lancaster, PA 17603
………………………………...

[Eric Pettersen]

Hi Gabriel,

What all the error text boils down to is: ISOLDE only works with ChimeraX 0.6 -- not earlier versions and not the daily build (which is "pre-0.7"). So you have to get the 0.6 version in order to give ISOLDE a try.
Now, as far as I know, the toolshed should have known that your version of ChimeraX isn't compatible with ISOLDE and should have issued some kind of more human-readable warning/error when you tried to install it, so I am leaving this ticket open until that is corrected.

--Eric

Eric Pettersen

UCSF Computer Graphics Lab

[Conrad Huang]

ISOLDE works with 0.8 and 0.9 now.