PIPER-FlexPepDock protocol file apply_ftresult.py missing

This topic has 2 replies, 2 voices, and was last updated 3 years ago by Anonymous.

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- November 4, 2021 at 1:33 pm #3863
  Anonymous
  Hello,
  
  I’ve been trying to run the PIPER-FlexPepDock pipeline in both ways, following the steps in the documentation page (https://www.rosettacommons.org/docs/latest/application_documentation/docking/flex-pep-dock), and using the scripts in the “tools/peptide docking” folder. But both cases need the script “apply_ftresults.py” which doesn’t exist in the source. Where can I get this script or any equivalent?
  
  Thank you in advance.
- November 5, 2021 at 8:56 am #16055
  Anonymous
  Hello Mariela,
  
  Some further details would be appreciated-
  
  Are you trying to run the full rosetta protocol using one of the binaries like
```
FlexPepDocking.{ext}.{distribution/compiler}release
```
  Such as FlexPepDocking.mpi.linuxgccrelease, or a mac binary, etc.?
  
  Using any of these binaries should not rely on any external scripts, python or otherwise.
  
  The scripts under tools/peptide_docking are for running another protocol called PIPER-FlexPepDock, and assumes you have the PIPER software (by schrodinger) installed and licensed.
  
  You can see the full instructions for running the protocol in the README file located in the ‘peptide_docking’ folder you mentioned.
  
  Please note that the address to download PIPER has changed and it can be found here:
  
  https://www.schrodinger.com/products/piper
  
  I hope this helps!
- November 26, 2021 at 1:11 pm #16068
  Anonymous
  Hi zivben,
  
  Thanks for your response!
  
  I’ve been trying to run the PIPER-FlexPepDock protocol. I already installed PIPER from the older version (ClusPro) and from Schrödinger after your suggestion. Until now, I managed to run the Rosetta protocol as in https://www.rosettacommons.org/docs/latest/application_documentation/docking/flex-pep-dock until Step II: Running PIPER FFT docking, so PIPER is working. But in the next step (Step III: Top scoring 250 PIPER models are extracted) it needed the script “apply_ftresult.py” that is absent in both versions of PIPER installed.
  
  Could you help me with this script?
  
  Best regards.
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