initial upload

docs/_site/pylagrit/original/static/sources/autodoc.rst.txt

@@ -0,0 +1,21 @@
+.. _class_docs:
+
+Class Documentation
+-------------------
+
+.. toctree::
+
+    PyLaGriT Class <autodoc_pylagrit.rst>
+
+    Mesh Class <autodoc_mo.rst>
+
+    Point Set Class <autodoc_pset.rst>
+
+    Element Set Class <autodoc_eltset.rst>
+
+    Face Set Class <autodoc_faceset.rst>
+
+    Region Class <autodoc_region.rst>
+
+    
+

docs/_site/pylagrit/original/static/sources/autodoc_eltset.rst.txt

@@ -0,0 +1,8 @@
+Element Set Object
+------------------
+.. automodule:: pylagrit
+
+.. autoclass:: EltSet
+   :members:
+   :undoc-members:
+

docs/_site/pylagrit/original/static/sources/autodoc_faceset.rst.txt

@@ -0,0 +1,8 @@
+Face Set Object
+---------------
+.. automodule:: pylagrit
+
+.. autoclass:: FaceSet
+   :members:
+   :undoc-members:
+

docs/_site/pylagrit/original/static/sources/autodoc_mo.rst.txt

@@ -0,0 +1,8 @@
+Mesh Object
+-----------
+.. automodule:: pylagrit
+
+.. autoclass:: MO
+   :members:
+   :undoc-members:
+

docs/_site/pylagrit/original/static/sources/autodoc_pset.rst.txt

@@ -0,0 +1,8 @@
+Point Set Object
+----------------
+.. automodule:: pylagrit
+
+.. autoclass:: PSet
+   :members:
+   :undoc-members:
+

docs/_site/pylagrit/original/static/sources/autodoc_pylagrit.rst.txt

@@ -0,0 +1,8 @@
+PyLaGriT
+--------
+.. automodule:: pylagrit
+
+.. autoclass:: PyLaGriT
+   :members:
+   :undoc-members:
+

docs/_site/pylagrit/original/static/sources/autodoc_region.rst.txt

@@ -0,0 +1,8 @@
+Region Object
+-------------
+.. automodule:: pylagrit
+
+.. autoclass:: Region
+   :members:
+   :undoc-members:
+

docs/_site/pylagrit/original/static/sources/gettingstarted.rst.txt

@@ -0,0 +1,73 @@
+Getting Started
+===============
+
+Installation
+------------
+
+The Python module PyLaGriT allows LaGriT to be accessed interactively and in batch mode from Python. 
+To install PyLaGriT on your system, change to the PyLaGriT directory and run ``python setup.py install``. 
+Alternatively, the PyLaGriT folder can be added to your **PYTHONPATH** environment variable. 
+Due to the use of the pexpect Python module, PyLaGriT does not work on Windows. 
+It has been tested on Mac and Linux operating systems. 
+
+Since PyLaGriT is simply a frontend for LaGriT, you will need a lagrit executable to use PyLaGriT.
+To use the paraview and gmv methods, you will need ParaView (http://www.paraview.org) and GMV (http://www.generalmeshviewer.com) installed, respectively.
+
+To avoid specifying the LaGriT, ParaView, and GMV executable locations, copy the **pylagritrc_example** file:
+
+.. literalinclude:: ../../pylagritrc_example
+
+in the PyLaGriT folder to your home directory or working directory changing its name to either **pylagritrc** or **.pylagritrc** and uncomment and change the path locations.
+
+Simple example
+--------------
+
+The following is a PyLaGriT script for creating a simple cube shaped mesh using the :func:`gridder <pylagrit.PyLaGriT.gridder>` and `connect <pylagrit.PyLaGriT.connect>` methods:
+
+.. code-block:: python
+
+    # Import PyLaGriT class from pylagrit module
+    from pylagrit import PyLaGriT
+    
+    # Create PyLaGriT object
+    # This assumes that pylagritrc is being used so that lagrit_exe option does not need to be specified
+    l = PyLaGriT()
+
+    # Create x,y,z arrays for location of points
+    x = range(1,5)
+    y = range(1,5)
+    z = range(1,5)
+
+    # Create mesh object using x,y,z arrays
+    m = l.gridder(x,y,z)
+
+    # Connect points
+    m.connect()
+
+    # Visualize connected mesh using ParaView
+    # This assumes that pylagritrc is being used so that exe option does not need to be specified
+    m.paraview()
+
+The script can be pasted line by line into a Python or IPython terminal, or saved in a file (e.g., ``script.py``) and run on the command line as ``python script.py``.
+
+This will open up ParaView with the mesh loaded:
+
+.. image:: cube.png
+
+Next steps
+----------
+
+Additional example PyLaGriT scripts are provided in the PyLaGriT/examples folder and in the :ref:`class_docs`. 
+
+Combining LaGriT and Python functionality
+^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
+
+An example of using PyLaGriT to facilitate looping over LaGriT functionality is described in the :func:`merge method <pylagrit.PyLaGriT.merge>` documentation, where a mesh is successively copied, translated and merged into a larger mesh.
+Other examples of usage are provided for other methods and more will be added in the future.
+
+User defined error checking
+^^^^^^^^^^^^^^^^^^^^^^^^^^^
+
+Since PyLaGriT stores the LaGriT terminal output from each command in the PyLaGriT object attribute ``before``, user-defined error checking can be easily implemented.
+The example provided with the :func:`refine method <pylagrit.EltSet.refine>` demonstrates this by checking for the string `The mesh is complete but could not include all points.` in the LaGriT output using ``lg.before``. 
+In this example, an error message is printed to the screen and the script is aborted.

docs/_site/pylagrit/original/static/sources/index.rst.txt

@@ -0,0 +1,24 @@
+.. PyLaGriT documentation master file, created by
+   sphinx-quickstart on Tue Oct  4 10:10:46 2016.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+PyLaGriT, Python interface for LaGriT
+=====================================
+
+.. include:: ../../README
+
+.. toctree::
+   :maxdepth: 2
+
+   Getting Started <gettingstarted.rst>    
+
+   Class Documentation <autodoc.rst>
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+

docs/_site/pylagrit/original/static/sources/stratigraphic.rst.txt

@@ -0,0 +1,11 @@
+Stratigraphic Hex Mesh Tutorial
+===============================
+Written by Guoyan Jiang (gyjiang@whu.edu.cn) with technical support from Dylan Harp (dharp@lanl.gov) and Terry Miller (tamiller@lanl.gov). 
+The associated LaGriT tutorial is `here <https://lanl.github.io/LaGriT/pages/tutorial/stratigraphy/index.html>`_.
+
+
+.. literalinclude:: ../../examples/stratigraphic_hex_mesh_tutorial.py
+
+The final result:
+
+.. image:: stratigraphy.png