"exception.no_pdb_records_for_chain", new String[]
{ id, ((chain == null) ? "' '" : chain) }));
}
- retrieve_AlphaFold_pAE(id, pdbAlignment, retrievalUrl);
+ // done during structure retrieval
+ // retrieve_AlphaFold_pAE(id, pdbAlignment, retrievalUrl);
} catch (Exception ex) // Problem parsing PDB file
{
}
} catch (Exception pae_ex)
{
- Console.debug("Couldn't download PAE", pae_ex);
+ Console.error("Couldn't download PAE", pae_ex);
}
}
pdbAlignment.getSequenceAt(0),
(Map<String, Object>) pae_obj.get(0));
- pdbAlignment.getSequenceAt(0)
- .addAlignmentAnnotation(pdbAlignment.addContactList(matrix));
+ AlignmentAnnotation cmannot = pdbAlignment.getSequenceAt(0)
+ .addContactList(matrix);
+ pdbAlignment.addAnnotation(cmannot);
return true;
}