no pdb outcome in the pyrosetta run version

[ajian-he]

runs normal, however, there is no pdb file out in the result folder

$ run_pyrosetta_ver.sh XXX.fasta . Running HHblits Running PSIPRED Running hhsearch Predicting distance and orientations Running parallel RosettaTR.py $ ls hhblits log parallel.fold.list pdb-3track t000_.3track.npz t000_.atab t000_.hhr t000_.msa0.a3m t000_.msa0.ss2.a3m t000_.ss2 $ ls pdb-3track

any suggestion? run e2e version normal, thanks

[liuboeo]

I also ran into the same problem, besides, side chain information can not be got from e2e script

[ajian-he]

the side chain info is also missing in my e2e run

[Rusfell]

runs normal, however, there is no pdb file out in the result folder

$ run_pyrosetta_ver.sh XXX.fasta . Running HHblits Running PSIPRED Running hhsearch Predicting distance and orientations Running parallel RosettaTR.py $ ls hhblits log parallel.fold.list pdb-3track t000_.3track.npz t000_.atab t000_.hhr t000_.msa0.a3m t000_.msa0.ss2.a3m t000_.ss2 $ ls pdb-3track

any suggestion? run e2e version normal, thanks

I also ran into the same problem with my own protein, but ran with the example protein normal.

[aputron]

Have you ensured that PyRosetta has been installed correctly in the folding conda environment? If you view the $WDIR/log/folding.stderr file you'll probably see errors regarding PyRosetta. Follow the instructions here to install and test the running of PyRosetta.

[lkj-keeke1]

Have you ensured that PyRosetta has been installed correctly in the folding conda environment? If you view the $WDIR/log/folding.stderr file you'll probably see errors regarding PyRosetta. Follow the instructions here to install and test the running of PyRosetta.

You are right, the folding.stderr told me there was no module called ''pyrosetta"😂. Thanks for your help, I'm installing it now and will try again to see if the run_pyrosetta_ver.sh works out this time.

[lj734999889]

I ran e2e version which was normal. But when I ran Pyrosetta version, it's wrong. The folding.stderr also told me there was no module called ''pyrosetta". However, I have installed Pyrosetta4 via conda in conda-folding folder. I just don't why it doesn't work well.