An error in the StructureBuilder (Biopython) based on Anaconda2 for pySCA tutorial, why the protein chain is discontinuous?

Question

I ran the S1A serine protease calculations follow the tutorial of pySCA (Statistical Coupling Analysis in python Link).

However, something wrong on the StructureBuilder (Biopython based on Anaconda2).

"WARNING: Chain %s is discontinuous..."

How can be fixed?

I will really appreciate if some of you can point it out.

THE ERROR OUTPUT:

Mingling@Mingling-PC MINGW32 ~/Desktop/pySCA
$ ./runAllNBCalcs_2.sh
C:\Users\Mingling\Anaconda2\lib\site-packages\Bio\PDB\StructureBuilder.py:89: PDBConstructionWarning: WARNING: Chain E is discontinuous at line 2569.
PDBConstructionWarning)
C:\Users\Mingling\Anaconda2\lib\site-packages\Bio\PDB\StructureBuilder.py:89: PDBConstructionWarning: WARNING: Chain I is discontinuous at line 2570.
PDBConstructionWarning)
C:\Users\Mingling\Anaconda2\lib\site-packages\Bio\PDB\StructureBuilder.py:89: PDBConstructionWarning: WARNING: Chain E is discontinuous at line 2580.
PDBConstructionWarning)
C:\Users\Mingling\Anaconda2\lib\site-packages\Bio\PDB\StructureBuilder.py:89: PDBConstructionWarning: WARNING: Chain I is discontinuous at line 2758.
PDBConstructionWarning)
Error!!! Something wrong with PDB id or path.