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Unable to successfully compile using Mac Catalina 10.15.7

Submitted by Cyrrusm on Tue, 2020-10-06 11:23
Category: 
Compilation

Hello, I am currently unable to correclty compile. I am running a macOS Catalina 10.15.7. 

The version I am currently using is Rosetta 3.12 with Mac binaries

I am able to unzip the file and go into the source folder with the following input:

cd Desktop/Rosetta/main/source/

Then try to compile using with the following...

./scons.py -j3 mode=release bin

The following error is given

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Rosetta 3 - Build/Install

PyMOL not displaying mover input

Submitted by Butterdream on Thu, 2020-10-01 02:50
Category: 
PyRosetta

Hey there.

I run a Linux subsystem (Linux 4.19.128-microsoft-standard x86_64) on Win10 (Build 19041.508) with wsl2 and Ubuntu 20.04.1 LTS. I successfully installed PyRosetta 4 (python 3.8 release 265).
Python: 3.8.2

On my windows I installed Pymol 2.4.1 198.

If I tell PyMOL to execute the PyMOL-RosettaServer.python3.py script from PyRosetta folder,
-> run \\wsl$\Ubuntu-20.04\home\[User]\PyRosetta4\PyMOL-RosettaServer.python3.py

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PyRosetta - Build/Install

Minimizer Iterations

Submitted by hjacomet on Tue, 2020-09-29 01:33
Category: 
PyRosetta

Hello,

Is there a way to retrieve the number of iterations performed by a min mover, either from the mover itself or from the log trace ?

For example with the following code, how could I find out if it stopped at 500 iterations or reached the tolerance threshold earlier?

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PyRosetta - Applications

"Server Could Not Be Reached" although I have an Internet connection

Submitted by epi89 on Mon, 2020-09-28 21:32
Category: 
PyRosetta

I am a new user of Interactive Rosetta, I use the software as guided in the tutorial. But when I want to "Thread" my protein, it came up with the message "Server Could Not Be Reached". I have already tried with several different Internet connection, but it still came up with this message. May I know how can I solve this problem? Thank you! 

 

Description of the message: 

The comparative modeling job could not sent to the server! Verify that you have an Internet connection and that the server is running.

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PyRosetta - General

NCAA Rotamers for Cyclosporin

Submitted by marinok on Mon, 2020-09-28 14:11
Category: 
Non-Canonical Peptides

Hi, 

I'm using cyclosporin to as a test case for understanding the design of macrocycles using Rosetta.  In the $ROSETTA3_DB/chemical/residue_type_sets/fa_standard/residue_types/cyclosporin directory there are parameters for two cyclosporin specific residues.  But when I try to use these residues in my input sequence (ALA LEU LEU VAL BMT LMA GLY LEU VAL LEU ALA), I'm getting this error when I run simple_cycpep_predict:

ERROR: Error!  Could not open rotamer library file ncaa_rotamer_libraries/cyclosporin/BMT_Nmethylated.rotlib for read.

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Rosetta 3 - Applications

RosettaCM or FastRelax?

Submitted by Tianyang89 on Wed, 2020-09-23 07:46
Category: 
Structure prediction

Hi,

I have a Cryo-EM density  and AA sequence for a protein , but the density  is not good enough for assign the residues unambiguously.

I'm particularly interested in one alpha-helix and based on secondary structure prediction, I have roughly known the AA sequence for the helix.

But the secondary structure prediction can't tell the boundary of the helix unambiguously.

Could anybody have any ideas about how I can get the correct register for the helix using Rosetta???

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Rosetta 3 - Applications

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