# PyRosetta

## trans-ACPC

Category:
PyRosetta

Hello!

I've been trying to create a pose with trans-ACPC, but when I use the X[TAC] in the sequence, it doesn't seem to know what residue it is. I know there's a params file for it... I tried loading a pdb structure with ACPC in it as my pose to see what'd happen and it says that:

"ERROR: Error in core::scoring::methods::RamaPreProEnergy::residue_pair_energy(): The RamaPrePro term is incompatible with cyclic dipeptides (as is most of the rest of Rosetta)."

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## Rosetta get_fa_scorefxn()

Category:
PyRosetta

I am using PyRosetta to minimize several complexes and obtain the rosetta calculated energy values. In order to obtain all the rosetta scoring terms, I am using the get_fa_scorefxn function. Whereas I want to retain all the scoring terms, the only option that seems available to see all of them is with the following lines:

scorefxn = get_fa_scorefxn()

pose = pose_from_pdb(<minimized_complex_pdb>)

scorefxn.show(pose)

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Category:
PyRosetta

Hello,

I need GUIs/pyrosetta_toolkit/ documentation from http://www.pyrosetta.org/documentation#TOC-1.-The-PyRosetta-Toolkit. However the linkage to this documentation is forbidden now. Can someone do me a favour to provide this documentation by email ? My email address is liuhui@qibebt.ac.cn

Thank you very much!

best wishes

Hui Liu

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## ipython can't find PyRosetta files

Category:
PyRosetta

I'm trying to get interactive rosetta to work on a linux virtual machine. I have zero experience coding so I've been struggling royally. I first tried Ubuntu 18.04, but after having some difficulty I decided to switch to as close of a setup as what is in the interactive rosetta install video as I could. I tried Ubuntu 12.04 64 bit with python 2.7.3 and PyRosetta 3 release 104. When I try to import rosetta into ipython this appears:

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## 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"

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

Thank you

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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:

Post Situation: