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
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
Hello,
I am using several applications with mpi (docking, pepspec, simple_cycpep_predict) and I get repeated entries of the same result with different scores.
Hello,
I read the rosetta tutorial for working with densities, available here:
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.
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?
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!
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
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
