tons of cleanup, documentation

CovertLab · Jun 11, 2018 · c79520c · c79520c
1 parent db98e92
commit c79520c
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Showing 22 changed files with 336 additions and 469 deletions.
diff --git a/bounds.py b/bounds.py
@@ -1,4 +1,13 @@
 
+'''
+
+Defines the parameter value bounds.  Only used in 'parsimonious' perturbation.
+See optimize.py for the 'naive' bounds.
+
+TODO: move 'naive' bounds to this file or another file
+
+'''
+
 from __future__ import division
 
 import numpy as np

diff --git a/constants.py b/constants.py
@@ -1,4 +1,10 @@
 
+'''
+
+Various constants used in the optimization or elsewhere.
+
+'''
+
 import numpy as np
 
 RT = 0.6 # kcal/mol - dependent on temperature

diff --git a/data.py b/data.py
@@ -1,4 +1,11 @@
 
+'''
+
+Defines the datatypes that will be loaded, and loads them into a 'knowledge
+base' object (kb).
+
+'''
+
 from __future__ import division
 
 import os

diff --git a/determinacy.py b/determinacy.py
diff --git a/distribution_shift.py b/distribution_shift.py