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ERROR: Unable to open weights/patch file

Category: 
Scoring

Hello,

I am getting the following error:

ERROR: Unable to open weights/patch file. None of (./)ref2015 or (./)ref2015.wts or /cluster/rosetta/bin/mpi/../database/scoring/weights/ref2015 or /cluster/rosetta/bin/mpi/../database/scoring/weights/ref2015.wts exist

Post Situation: 

Per residue total score

Category: 
Scoring

Hi Rosetta Team!

I read from the scoring tutorial this line

A rule of thumb: -1 to -3 REU per residue is typical while scoring a refined structure with ref2015 score function.

May I know if it is possible to directly call this per residue total score during scoring?

Thank you.

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Output and Input Tutorial

Category: 
Scoring

 After I had moved to the input_file directory following the Controlling Input and Output in Rosetta,I ran,

$ROSETTA3/bin/score_jd2.default.linuxgccrelease -in:file:s input_files/1qys.pdb

and I got the output,

-bash: /bin/score_jd2.default.linuxgccrelease: No such file or directory. 

What would you recommend doing?

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ShapeSimilarity, ElectrostaticSimilarity (RosettaSurf)

Category: 
Scoring

Hi all,

I would like to try out ShapeSimilarity and ElectrostaticSimilarity filters that were described in the 3.13 release notes (https://www.rosettacommons.org/docs/latest/release-notes), but the links on that page says it's "Forbidden. This Wiki is set to no-edit mode."  I tried adding it to Rosetta script and I get "This element is not expected" error.  Would somebody be able to point me to the right direction?

Best,

Ken

Post Situation: 

Relax evaluates protein-DNA complexes?

Category: 
Scoring

Dear users,

I'm currently working on generating a DNA complexed protein and I thought I could use the relax application to avoid steric clashes generated during the "copy/paste" approach I used to put the DNA and protein together (after alignment with previously solved structure).

Does anybody have experience with improving the quality of DNA-protein complexes through Rosetta? my aim is to prepare the PDB for conventional molecular dynamics.

Any help is appreciated.


Pablo

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