. Only with qtconsole installed. PyChimera has been successfully installed and tested in the following 64-bit systems: Linux. Arch Linux with UCSF Chimera 1.10, 1.11, 1.12; Ubuntu 14.04 with UCSF Chimera 1.10, 1.11, 1.12 (Travis CI’s) CentOS 6.3 with UCSF Chimera 1.11.2; Mac OS X. 10.11 El Capitan with UCSF Chimera 1.12. May 01, 2013 Installing qtconsole for the new IPython 0.11 to work in Mac OS X is quite cumbersome. The following guide will help you in installing qtconsole for IPython on Mac OS X Lion. It will also work for newer versions of IPython. First, make sure that you do everything with.
Multiline editing is one of the features which is not available in IPython terminal. In order to enter more than one statements in a single input cell, press ctrl+enter after the first line. Subsequently, just pressing enter will go on adding new line in the same cell. To stop entering new lines and running cell, press enter key one more time at the end. The cell will run and output will be displayed in next out[] cell.
PyChimera lets you use the full UCSF Chimera codebase in any Python 2.7 project.
![]() Why?¶
UCSF Chimera is an extensible molecular visualization tool with a vast collectionof modules gathered after years of development. These tools allow you to performserious molecular modelling jobs even without Python knowledge (they also offera very versatile text interface with custom commands).
However, all this code is only available if you use the bundled Python 2.7 interpreterto run your scripts, like this:
Or, using the GUI command line toolbar, by running
runscriptpath/to/my/script.pyarg1arg2.. . This is less desirable than simply running pythonscript.pyarg1arg2.. .
With PyChimera, you can run
pychimerascript.py and forget about using the UCSF Chimerainterpreter or not. It just works. Additionally, it offers some more features:
If you want more details, be sure to check the paper (already submitted, once published, itwill be linked here).
Usage¶
Run
pychimera-h for quick help. Basically:
Running code¶
To execute a script:
To launch a module that uses UCSF Chimera internally:
To execute any Python statement:
To know which UCSF Chimera instance is being loaded:
Interactive sessions¶
To start an interactive Python session with importable UCSF Chimera modules:
![]() Jupyter Qtconsole Which Was Built For Mac Os X 10.11 0 11 Download Free Iso
To launch the UCSF Chimera GUI with custom packages (check InsiliChem Plume as an example!):
Multiplatform compatibility¶
UCSF Chimera is available for Linux, Mac OS X and Windows. PyChimera does its best toprovide the same compatibility for all three platforms and each release is continuouslytested in Travis CI (Linux, Mac OS X) and AppVeyor (Windows). Despite our efforts,some features might not be as polished in some platforms. The table below summarizesthe current state of implementation:
** Only with
qtconsole installed.
Jupyter Qtconsole Which Was Built For Mac Os X 10.11 Update
PyChimera has been successfully installed and tested in the following 64-bit systems:
![]() Jupyter Qtconsole Which Was Built For Mac Os X 10.11 Tall Os X 10 11 On Mac Desktop
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