# PyRosetta

## molfile_to_params.py

Category:
PyRosetta

Hi all,

I'm trying to run the molfile_to_params.py script.

I run into an import error: "No module named rosetta_py.io.mdl_molfile"

Anyone know where I can find and download rosetta_py for pyrosetta?

I can't seem to find it online...

Thank you

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## Documentation

Category:
PyRosetta

Hi All,

We are trying to access the pyrosetta documentations, but there was nothing in the documentation, every topic is empty. We are wondering if anybody has the same problem recently? Or maybe it's just our net work issue.

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## Incomplete Error message

Category:
PyRosetta

So, I have a code that is supposed to design an enzyme with constraints taken into account. I started it once, looping through a folder of pdb files (that one is still running, takes a while to design 375 pdb files), then just changed which folder and pdb files it would work with. Unfortunately, I then got an error message that cuts off before actually giving the error:

RuntimeError:

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## PyMOLMover object has no attribute 'link'

Category:
PyRosetta

Hi Guys,

I am trying to set up the PyMOLMover object to view structure manipulations. We have PyRosetta set up on a compter cluster, and I was going to have it run scripts and send structure info to another PyMOL instance on a separate computer on the same network - however it errors out when trying to assign an IP address to the link.udp_ip attribute. The code is simple and pulled straight from the following documentation/tutorial: http://www.pyrosetta.org/pymol_mover-tutorial

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## Resfile Error

Category:
PyRosetta

Hello everyone,

I am trying to perform RosettaDesign, and I have a script that uses pyrosetta.rosetta.core.pack.task.parse_resfile()

In the past this worked just fine, but now with the new update it seems it doesn't work, I get this error:

RuntimeError:
File: /scratch/benchmark/W.glass/rosetta.Glass/_commits_\$ main/source/src/core/pack/task/ResfileReader.cc:1582 [ ERROR ] UtilityExitException ERROR:

I am not sure how to fix this issue, following is two codes that break:

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## Pyrosetta: restrict repack (and minimization) to specific region

Category:
PyRosetta

Hi everyone,

I am trying to restrict repacking around a residue . I have written a script with PreventRepacking() and RestrictToRepacking but I am still confised about the result. Here is the code I am using:

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## 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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## PyMOL_Mover for PyRosetta installed via anaconda

Category:
PyRosetta

I have successfully installed PyRosetta via anaconda by command of "conda install pyrosetta" in Linux (Windows subsystem Linux) according to this instruction.

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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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