cleanup links in docs

CONTRIBUTING.md

@@ -9,7 +9,7 @@ You can contribute in many ways:
 
 ### Report Bugs
 
-Report bugs at <https://github.com/usnistgov/thermoextrap/issues>.
+Report bugs at <https://github.com/usnistgov/thermo-extrap/issues>.
 
 If you are reporting a bug, please include:
 
@@ -35,7 +35,7 @@ articles, and such.
 
 ### Submit Feedback
 
-The best way to send feedback is to file an issue at <https://github.com/usnistgov/thermoextrap/issues>.
+The best way to send feedback is to file an issue at <https://github.com/usnistgov/thermo-extrap/issues>.
 
 If you are proposing a feature:
 

docs/conf.py

@@ -261,7 +261,7 @@
 #
 # This is also used if you do content translation via gettext catalogs.
 # Usually you set "language" from the command line for these cases.
-language = None
+language = "en"
 
 # List of patterns, relative to source directory, that match files and
 # directories to ignore when looking for source files.

docs/installation.md

@@ -44,20 +44,13 @@ The sources for thermodynamic-extrapolation can be downloaded from the [Github r
 You can either clone the public repository:
 
 ```console
-$ git clone git://github.com/wpk-nist-gov/thermoextrap
-```
-
-Or download the [tarball]:
-
-```console
-$ curl -OJL https://github.com/wpk-nist-gov/thermoextrap/tarball/master
+$ git clone git://github.com/usnistgov/thermo-extrap.git
 ```
 
 Once you have a copy of the source, you can install it with:
 
 ```console
-$ python setup.py install
+$ pip install .
 ```
 
-[github repo]: https://github.com/wpk-nist-gov/thermoextrap
-[tarball]: https://github.com/wpk-nist-gov/thermoextrap/tarball/master
+[github repo]: https://github.com/usnistgov/thermo-extrap

docs/notebooks/gpr/analysis_adsorption.ipynb

@@ -1302,7 +1302,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### Maximum variance"
+    "### Maximum variance active learning"
    ]
   },
   {
@@ -1616,7 +1616,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### Space-filling"
+    "### Space-filling active learning"
    ]
   },
   {
@@ -1773,7 +1773,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### Comparison"
+    "### Comparison active learning"
    ]
   },
   {

docs/notebooks/gpr/analysis_polymer.ipynb

@@ -554,7 +554,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### Nice figures"
+    "### Nice figures 1"
    ]
   },
   {
@@ -915,7 +915,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### Nice figures"
+    "### Nice figures 2"
    ]
   },
   {

src/thermoextrap/adaptive_interp.py

@@ -152,7 +152,7 @@ def train_iterative(
     alpha_tol : float, default=0.01
         new states must have `abs(alpha_new - alpha) > alpha_tol` for all existing states.
     callback : callable
-        stop = callback(model, alphas, info_dict, **callback_kws).
+        `stop = callback(model, alphas, info_dict, **callback_kws)`.
         If callback returns something that evaluates True, then the iteration stops.
         * model : current model.
         * alphas : sequence of alphas
@@ -291,7 +291,7 @@ def train_recursive(
     alpha_tol : float, default=0.01
         new states must have `abs(alpha_new - alpha) > alpha_tol` for all existing states.
     callback : callable
-        stop = callback(model, alphas, info_dict, **callback_kws).
+        `stop = callback(model, alphas, info_dict, **callback_kws)`.
         If callback returns something that evaluates True, then the iteration stops.
         `model` is the current model.
         `alphas` is the sequence of alphas

src/thermoextrap/core/models.py

@@ -73,8 +73,7 @@ def deriv_args(cls):
 
         See Also
         --------
-        sympy.lambdify
-
+        sympy.utilities.lambdify.lambdify
         """
         raise NotImplementedError("must specify in sublcass")
 
@@ -211,11 +210,15 @@ class Lambdify:
     Parameters
     ----------
     exprs : sequence of symFunction
-        array of sympy expressions to :func:`~sympy.utilities.lambdify`
+        array of sympy expressions to ``lambdify``
     args : sequence of Symbol
         array of symbols which will be in args of the resulting function
     lambdify_kws : dict
-        extra arguments to :func:`~sympy.utilities.lambdify`
+        extra arguments to ``lambdify``
+
+    See Also
+    --------
+    sympy.utilities.lambdify.lambdify
     """
 
     exprs: Sequence[sp.Function] = field()