Converted tests to use cgnsdiff

.github/test_real.sh

@@ -1,7 +1,7 @@
 #!/bin/bash
 set -e
-
-cd reg_tests
+cd tests
+./ref/get-ref-files.sh
 testflo . -v -n 1
 
 cd ../examples

.gitignore

@@ -14,4 +14,8 @@
 *.fmt
 *.lay
 *.plt
+*.cgns
+*.out
+*.egg-info
 doc/tmp.rst
+doc/_build

doc/install.rst

@@ -23,34 +23,54 @@ Compilation
 pyHyp follows the standard MDO Lab build procedure.
 To start, first clone the repo. For stability we recommend checking out a tagged release.
 
-Next, find a configuration file close to your current setup in::
+Next, find a configuration file close to your current setup in ``config/defaults`` and copy it to ``config/config.mk``.
+For example:
 
-    $ config/defaults
+.. prompt:: bash
 
-and copy it to ``config/config.mk``. For example::
-
-    $ cp config/defaults/config.LINUX_GFORTRAN_OPENMPI.mk config/config.mk
+    cp config/defaults/config.LINUX_GFORTRAN_OPENMPI.mk config/config.mk
 
 If you are a beginner user installing the packages on a Linux desktop, 
 you should use the ``config.LINUX_GFORTRAN_OPENMPI.mk`` versions of the configuration 
 files. The ``config.LINUX_INTEL.mk`` versions are usually used on clusters.
 
-Once you have copied the config file, compile pyHyp by running::
+Once you have copied the config file, compile pyHyp by running:
+
+.. prompt:: bash
 
-    $ make
+    make
 
 If everything was successful, the following lines will be printed to
 the screen (near the end)::
 
    Testing if module hyp can be imported...
    Module hyp was successfully imported.
 
-Finally, install the Python interface with::
+Finally, install the Python interface with:
+
+.. prompt:: bash
 
     pip install .
 
 Testing Your Installation
 -------------------------
 
-To test your installation, you can run some of the scripts in the ``examples`` folder or run the regression tests with ``testflo -v`` from the root directory.
-Some of the examples require you to have `cgnsUtilities <https://github.com/mdolab/cgnsutilities>`_ installed.
+To test your installation, you can run the regression tests.
+Running the tests requires additional dependencies.
+Check if you have these installed by running:
+
+.. prompt:: bash
+
+    pip install .[testing]
+
+Once you have the necessary dependencies, download the reference mesh files:
+
+.. prompt:: bash
+
+    ./reg_tests/ref/get-ref-files.sh
+
+Then, in the root directory, run:
+
+.. prompt:: bash
+
+    testflo -v