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Design

Fast relax not working

Category: 
Design

Hi I have not used Rosetta for a while.  i wanted to relax my receptor for enzyme design and i kept on having the message

Evaluation Creator active ... 

protocols.relax.FastRelax: WARNING: Pose has no residues. Doing a FastRelax would be pointless. Skipping.

protocols.jd2.JobDistributor: S_0001 reported success in 0 seconds

protocols.jd2.JobDistributor: no more batches to process... 

protocols.jd2.JobDistributor: 1 jobs considered, 1 jobs att

here is my flag file

Post Situation: 

Error using InterfaceHoles filter

Category: 
Design

Hi,
I'm trying to use the InterfaceHoles filter and get the following error:

protocols.rosetta_scripts.ParsedProtocol: =======================BEGIN FILTER holes=======================
core.scoring.packing.compute_holes_score: compute_holes_surfs try: 1
sh: 1: alpha20_surf: not found

Any idea where alpha20_surf needs to be (or if it needs to be compiled?)

 

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cxx11 error with antibody modelling

Category: 
Structure prediction
Design

Dear all,

I built the last release 2017.08 recently. I have not encountered any error during the build. Here is the command I ran:

./scons.py -j8 mode=release bin extras=cxx11 extras=mpi

I have gcc version 5.4.0 so according to build tutorial this should new enough to have C++11 support. 

But when I am running antibody.linuxrelease as according to the protocol on

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Looking for collaboration.

Category: 
Design

​Dear Rosetta Community,

 
I am searching for labs in the UK that uses rosetta to design proteins for collaboration. Is there a list of all labs that either develop or use rosetta?
 
Why the UK? becuse the funding I will bring will be from a UK based institute.
 
Just a list, or where I can find one, will be helpful enough.
 
Thank you.
Post Situation: 

KeyError: 'subject-id' in antibody modelling

Category: 
Structure prediction
Design

Dear all,

I have recently started learning Rosetta. Now I am working on antibody modelling. I have prepared my inputs, have blast and Pro-Fit working.  When I am running the antibody.py with the default preprocessing options

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Error when running Remodel with EnzDes constraint file to extend c-terminal

Category: 
Design

hi, everybody

In my test in  running Remodel with EnzDes constraint file,

the blueprint file is:

''''
95 E .
96 F . CST1A 
97 S .
98 E L CST1B 
99 E L

#################

the cstfile is:

CST::BEGIN
  TEMPLATE::  ATOM_MAP: 1 atom_type: Nbb 
  TEMPLATE::  ATOM_MAP: 1 is_backbone
  TEMPLATE::  ATOM_MAP: 1 residue3:  ALA CYS ASP GLU PHE GLY HIS ILE LYS LEU MET ASN GLN ARG SER THR VAL TRP TYR

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