Update docs.

Author: shyuep

docs/index.md

@@ -81,7 +81,7 @@ pip install -r requirements.txt
 
 # Usage
 
-Many Jupyter notebooks are available on usage. See [notebooks](/notebooks). We also have a tool and tutorial lecture
+Many Jupyter notebooks are available on usage. See [notebooks](https://github.com/materialsvirtuallab/maml/tree/master/notebooks). We also have a tool and tutorial lecture
 at [nanoHUB](https://nanohub.org/resources/maml).
 
 # API documentation

docs/maml.apps.bowsr.md

@@ -264,15 +264,15 @@ Bases: `object`
 
 Perturbation class for determining the standard lattice.
 
-#### *property* abc(   *: list[float* )
+#### *property* abc(    *: list[float* )
 
 Returns the lattice lengths.
 
-#### *property* fit_lattice(   *: boo* )
+#### *property* fit_lattice(    *: boo* )
 
 Returns whether the lattice fits any crystal system.
 
-#### *property* lattice(   *: Lattic* )
+#### *property* lattice(    *: Lattic* )
 
 Returns the lattice.
 
@@ -449,7 +449,7 @@ Holds the perturbations of coordinates/lattice (x_wyckoff/x_lattice)
 – formation energy (Y). Allows for constant-time appends while
 ensuring no duplicates are added.
 
-#### *property* bounds(   *: ndarra* )
+#### *property* bounds(    *: ndarra* )
 
 Returns the search space of parameters.
 
@@ -460,7 +460,7 @@ Latin hypercube sampling.
 * **Parameters**
   **n_intervals** (*int*) – Number of intervals.
 
-#### *property* params(   *: ndarra* )
+#### *property* params(    *: ndarra* )
 
 Returns the parameters in target space.
 
@@ -489,7 +489,7 @@ lattice perturbation/volume perturbation.
 
 Empty the param, target of the space.
 
-#### *property* target(   *: ndarra* )
+#### *property* target(    *: ndarra* )
 
 Returns the target (i.e., formation energy) in target space.
 

docs/maml.apps.gbe.md

@@ -46,7 +46,7 @@ Dict representation of the GBond class.
 * **Return type**
   dict of {“loc_algo”
 
-#### *property* bond_matrix(   *: ndarra* )
+#### *property* bond_matrix(    *: ndarra* )
 
 The (padded) bond matrix.
 
@@ -86,11 +86,11 @@ Function to calculate the mean bond length difference between GB and the bulk
 
 Returns: the mean_bl_chg
 
-#### *property* max_bl(   *: floa* )
+#### *property* max_bl(    *: floa* )
 
 The maximum bond length.
 
-#### *property* min_bl(   *: floa* )
+#### *property* min_bl(    *: floa* )
 
 The minimum bond length.
 
@@ -128,7 +128,6 @@ Describe gb with selected structural and elemental features
 :param inc_bulk_ref: whether to generate bulk reference
 
 > bulk reference: i.e. the entry of the origin bulk of the GB,
-
 > ```none
 > the rotation angle (theta) = 0, gb_energy = 0
 > ```