Plugin to use cisTEM programs within the Scipion framework
This plugin provides wrappers for several programs of cisTEM software suite.
You will need to use 3.0+ version of Scipion to be able to run these protocols. To install the plugin, you have two options:
scipion installp -p scipion-em-cistem
git clone -b devel https://github.com/scipion-em/scipion-em-cistem.git
scipion installp -p /path/to/scipion-em-cistem --devel
cisTEM binaries will be installed automatically with the plugin, but you can also link an existing installation.
Default installation path assumed is software/em/cistem-1.0.0-beta, if you want to change it, set CISTEM_HOME in scipion.conf file pointing to the folder where the cisTEM is installed.
It’s possible to use CTFFIND4 installed separately from cisTEM by defining CTFFIND4_HOME variable in scipion.conf. Setting this value will have the priority over Ctffind inside cisTEM.
A complete list of tests can be seen by executing scipion test --show --grep cistem
4.1.13, 4.1.14 (ctffind4)
import tomo CTFs
Timothy Grant and Alexis Rohou and Nikolaus Grigorieff. (2018) cisTEM, user-friendly software for single-particle image processing. eLife 7:e35383.
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