Changed some remaining malaria references (from template) to typhiod.

docs/conf.py

@@ -29,7 +29,7 @@
 else:
     subprocess.check_output(["make.bat", "generate-api"], cwd=os.path.dirname(os.path.abspath(__file__)))
 
-# Rename "emodpy-malaria" to "API reference"
+# Rename "emodpy-typhoid" to "API reference"
 filename = 'modules.rst' # This must match the Makefile
 with open(filename) as f: # Read existing file
     lines = f.readlines()
@@ -310,7 +310,7 @@
 # html_search_scorer = 'scorer.js'
 
 # Output file base name for HTML help builder.
-htmlhelp_basename = 'emodpy-malaria'
+htmlhelp_basename = 'emodpy-typhoid'
 
 # -- Options for LaTeX output ---------------------------------------------
 
@@ -336,7 +336,7 @@
 # (source start file, target name, title,
 #  author, documentclass [howto, manual, or own class]).
 latex_documents = [
-    (master_doc, 'emodpy-malaria-docs.tex', u'emodpy-malaria',
+    (master_doc, 'emodpy-typhoid-docs.tex', u'emodpy-typhoid',
      u'Institute for Disease Modeling', 'manual'),
 ]
 
@@ -378,7 +378,7 @@
 # One entry per manual page. List of tuples
 # (source start file, name, description, authors, manual section).
 man_pages = [
-    (master_doc, 'emodpy-malaria-docs', u'emodpy-malaria',
+    (master_doc, 'emodpy-typhoid-docs', u'emodpy-typhoid',
      [author], 1)
 ]
 
@@ -392,8 +392,8 @@
 # (source start file, target name, title, author,
 #  dir menu entry, description, category)
 texinfo_documents = [
-    (master_doc, 'emodpy-malaria-docs', u'emodpy-malaria',
-     author, 'Institute for Disease Modeling', 'How to use emodpy for malaria simulations.',
+    (master_doc, 'emodpy-typhoid-docs', u'emodpy-typhoid',
+     author, 'Institute for Disease Modeling', 'How to use emodpy for typhoid simulations.',
      'Miscellaneous'),
 ]
 
@@ -420,6 +420,6 @@
                        'emod_api': ('https://docs.idmod.org/projects/emod-api/en/latest/', None),
                        'emodpy': ('https://docs.idmod.org/projects/emodpy/en/latest/', None),
                        'idmtools': ('https://docs.idmod.org/projects/idmtools/en/latest/', None),
-                       'emod-malaria': ('https://docs.idmod.org/projects/emod-malaria/en/latest/', None),
+                       'emod-typhoid': ('https://docs.idmod.org/projects/emod-typhoid/en/latest/', None),
                        'pycomps': ('https://docs.idmod.org/projects/pycomps/en/latest/', None)
                        }

docs/index.rst

@@ -3,13 +3,13 @@
 ==============================
 
 |EMODPY_typhoid| is a collection of Python scripts and utilities created to
-streamline user interactions with |EMOD_s| and |IT_s| for modeling malaria.
+streamline user interactions with |EMOD_s| and |IT_s| for modeling typhoid.
 Much of  the functionality is inherited from the
 :doc:`emod_api:emod_api` and :doc:`emodpy:emodpy`.
 
 Additional information about how to use |IT_s| can be found in
-:doc:`idmtools:index`.  Additional information about |EMOD_s| malaria
-parameters can be found in :doc:`emod-malaria:parameter-overview`.
+:doc:`idmtools:index`.  Additional information about |EMOD_s| typhoid
+parameters can be found in :doc:`emod-typhoid:parameter-overview`.
 
 See :doc:`idmtools:index` for a diagram showing how |IT_s| and each of the
 related packages are used in an end-to-end workflow using |EMOD_s| as the