Updated the Amber Na+/CL- tutorial to be consistent with Adam's change in the env.sh
@@ -120,6 +120,10 @@ The above files are listed roughly in the order in which it is appropriate to
configure them. ``gen_istate.sh``, ``get_pcoord.sh``, ``runseg.sh``, and
``post_iter.sh`` are located in the ``westpa_scripts`` subfolder.
+Typically when setting up a WESTPA simulation, you will need to write these
+files yourself or modify the files provided in an example, such as this
+tutorial.
+
env.sh
~~~~~~
@@ -130,7 +134,9 @@ also sets the executables for Amber; using an environment variable for this
purpose makes it easier to transition code to different hardware or test
different builds or flags of an MD code without editing multiple files.
-**You should edit this file to specify the path to your Amber installation.**
+**Make sure that your ``$AMBERHOME`` environment variable is correctly set and
+that ``$AMBERHOME/lib`` is in ``$LD_LIBRARY_PATH``. This should be the case if
+you have sourced ``amber.sh`` from your Amber installation directory.**
gen_istates.sh
~~~~~~~~~~~~~~
