Adds a chapter on how to define and use observers

Author: miguelgondu

.gitignore

@@ -9,6 +9,7 @@ docs/protein-optimization/understanding_foldx/01-single-mutation-using-foldx/tmp
 !docs/protein-optimization/understanding_foldx/01-single-mutation-using-foldx/tmp/101m.pdb
 !docs/protein-optimization/understanding_foldx/01-single-mutation-using-foldx/tmp/Raw_101m_Repair.fxout
 !docs/protein-optimization/understanding_foldx/01-single-mutation-using-foldx/tmp/individual_list.txt
+docs/protein-optimization/using_poli/the_basics/results
 
 # Build directory
 docs/protein-optimization/_build

docs/protein-optimization/_toc.yml

@@ -11,6 +11,7 @@ parts:
     chapters:
       - file: using_poli/the_basics/intro_to_poli.ipynb
       - file: using_poli/the_basics/registering_an_objective_function.md
+      - file: using_poli/the_basics/defining_an_observer.ipynb
       - file: using_poli/the_basics/defining_a_problem_solver.md
       - file: using_poli/the_basics/optimizing_an_objective_function.md
       - file: using_poli/the_basics/diving_deeper.md

docs/protein-optimization/contributing/a_new_problem.md

@@ -81,7 +81,7 @@ class YourProblemFactory(AbstractProblemFactory):
 
     def create(
         self,
-        seed: int = 0,
+        seed: int = None,
         your_keyword_1: str = ...,
         your_keyword_2: str = ...,
     ) -> Tuple[AbstractBlackBox, np.ndarray, np.ndarray]: