# Scoring

## Score.sc file showing total score 0 for all protein structures created

Category:
Scoring

Hello, I am trying to use Rosetta to design the interface of my protein and would like to rank the predicted structures based on their scores however, after running the job, all the files show 0 for the total score. Could anyone take a look at my xml script and flags file (in the pdf file) to see if I'm missing something or how else to fix this issue? Thanks in advance!

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## pose.energies().total_enegies().show_nonzero() changes after packer is applied

Category:
Scoring

Hi, sorry to bother you I am using the following function to create a packer:

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## Error with sequence_tolerance.R processing the checkpoint files, *.ga.entities and *.ga.generations.

Category:
Scoring

Hello,

the output files, *.ga.entities and *.ga.generations, were produced by sequence_tolerance application.

When I tried to use sequence_tolerance.R processing the output files, I got the following error:

> source("/usr/local/rosetta_src_2021.16.61629_bundle/main/tools/analysis/apps/sequence_tolerance.R")

> process_seqtol("./2I0L_A_C_V2006_0001.ga.entities")

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## total_score changes when decomposing bb hbonds ref2015

Category:
Scoring

Hi. Really sorry to disturb you but I don't understand some behaviour regarding scoring.
I will first describe the issue and paste the code.  Originally I was using

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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

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## 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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## Antibody scoring

Category:
Scoring
ROSIE

Hi,

I am wondering what the scores that are provided in the score file of an antibody job mean. Does a more negative score mean that a model is expected to be closer to the native structure?

Thanks!

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