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PyRosetta

Residue is not compatible with cutpoints

Category: 
PyRosetta

Hi all,

I'm currently trying to run the CCDLoopClosureMover function in order to attach two protein domains together. 

When I try to add a single cutpoint variant around my jump point, I repeatedly get a warning that says:

"Residue 126 is not compatible with cutpoints; variant type not changed." 

Residue 126 is the Cterminus

This warning also shows up for residue 127 (the Nterminus of the other protein domain). And thus, I cannot apply CCD to my pose because I don't have a cutpoint variant....

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Question about the error when using pyrosetta.distributed.io

Category: 
PyRosetta

I have tried the latest version of Pyrosetta Anaconda python3.6 (PyRosetta4.Release.python36.mac 2019.19+release 5adc612fd9dee20f808a07e761610d95698b0f35) and previous version, PyRosetta4.Release.python36.mac 2019.18+release on MacOS, but run into the same errors when I do, for example,

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Need help figuring out the meaning and cause of an error

Category: 
PyRosetta

I run into this problem when trying to use prepend_polymer_residue_before_seqpos and I can't understand what it really means and, most importantly, what its cause is and how to prevent it from happening. There's a screenshot of the error in the attached pic.

Assertion `moving_connection.icoor().is_internal() && fixed_connection.icoor().is_internal()` failed
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Installation files not found

Category: 
PyRosetta

I'm currently installing PyRosetta on windows (anaconda) using the linux tar file with the installation instructions from

http://www.pyrosetta.org/dow

I've reached step 6:

From within the new PyRosetta directory, type cd setup && python setup.py install into the command line to set up the PyRosetta.

I've run the installation and received the following output:

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Noob question about optimizing a pose

Category: 
PyRosetta

Hello, I am very new to PyRosetta, so this might not make a lot of sense. What I'm trying to do is minimise the energy of a given pose. I don't know much about this, so any tips about how to approach it and which instruments to use would be appreciated. Thank you.

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newbie question re pose syntax

Category: 
PyRosetta

Hello :

I am learning the basics of pyrosetta from this tutorial 

https://graylab.jhu.edu/pyrosetta/downloads/documentation/PyRosetta_Manual.pdf

but when I enter the code verbatim I get an error.

is  something wrong with the syntax they give?  trying to do this:

 

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