I am trying to use the fragment file generated in the Robetta we site, to build a model for my protein. I am following the instructions in the tutorial, and I checekd that the file I am using sees just like the one used on the tutorial (test_in3_fragments). So everything seems ok. However, pyrosetta is not able to read my fragment file, I guess, since it comes out a reading “line too short, unable to read fragment”….all lines like that, and in the end it says “o fragments read”. I try anyhow to generate a pdb and it comes out something that seems good, but when I try to visualize is a mess of atoms.
What can be wrong? I am just following basic instructions…
Your original question says you’ve checked all the obvious things, mostly making sure that your Robetta fragments match the regular fragment file format. Does test_in3_fragments, or whatever code you are using, correctly load the sample fragment file you are comparing to?