Doc updates from v2.0.0

doc/Doxyfile.IN

@@ -44,7 +44,7 @@ PROJECT_NUMBER         = "--PROJECT_NUMBER--"
 # for a project that appears at the top of each page and should give viewer a
 # quick idea about the purpose of the project. Keep the description short.
 
-PROJECT_BRIEF          = "This is a living document and may be updated at any time."
+#PROJECT_BRIEF          = "This is a living document and may be updated at any time."
 
 # With the PROJECT_LOGO tag one can specify a logo or an icon that is included
 # in the documentation. The maximum height of the logo should not exceed 55

doc/architecture.md

@@ -10,10 +10,10 @@ The architecture allows for multiple `EARTH_COMP` instances.
 NEMS includes atmosphere, ocean, ice, wave, land,
 aerosol/chemistry, and hydrologic models, with coupling interface and
 utilities based on the 
-[Earth System Modeling Framework (ESMF)](https://www.earthsystemcog.org/projects/esmf/).
+[Earth System Modeling Framework (ESMF)](https://www.earthsystemmodeling.org).
 The NEMS applications also utilize intreopereability conventions
 introduced by the 
-[National Unified Operational Prediction Capability (NUOPC)](https://www.earthsystemcog.org/projects/nuopc/).
+[National Unified Operational Prediction Capability (NUOPC)](https://www.earthsystemmodeling.org/nuopc/).
 
 Key architecture features are:
 
@@ -24,8 +24,7 @@ Key architecture features are:
 
 * The NEMS mediator component is an integral part of the NEMS
   software. The mediator source code is managed alongside the NEMS
-  source code, is integrated into the NEMS make system and is built
-  when the NEMS executable is built.
+  source code and is built when the NEMS executable is built.
 
 * Component models are treated by NEMS as external
   dependencies. Their source code is managed outside of NEMS,

doc/cap-doc.md

@@ -2,13 +2,13 @@ Cap Documentation {#cap-page}
 =================
 
 Caps are codes that act as adaptors, enabling models to use 
-[NUOPC](https://www.earthsystemcog.org/projects/nuopc/)
+[NUOPC](https://www.earthsystemmodeling.org/nuopc/)
 standard component interfaces. They are called caps because they "sit
 on top" of user code and call into it. They contain translations of
 native model data structures into ESMF data structures.
 
 For documentation of caps, see the 
-[Earth System Prediction Suite (ESPS)](https://www.earthsystemcog.org/projects/esps/)
+[Earth System Prediction Suite (ESPS)](https://earthsystemprediction.gov/About/ESPS)
 site. Find the components on the table on the landing page, and
 follow the corresponding Code Access and Documentation link. Not all
 listed components have documented caps. The ESPS is a collection of

doc/introduction.md

@@ -2,7 +2,7 @@ Introduction to NEMS {#introduction}
 ====================
 
 The NOAA Environmental Modeling System (NEMS) is the infrastructure
-underlying NOAA's [Unified Forecast System (UFS)] (https://ufscommunity.org/) a fully coupled modeling framework that supports predictions of
+underlying NOAA's [Unified Forecast System (UFS)] (https://ufscommunity.org/), a fully coupled modeling framework that supports predictions of
 Earth's environment at a range of time scales. Examples of other
 coupled modeling systems are the 
 [Community Earth System Model (CESM)](http://www.cesm.ucar.edu)
@@ -42,14 +42,14 @@ in others it may be the Modular Ocean Model (MOM).
 Infrastructure
 --------------
 
-[NEMS is built using the Earth System Modeling Framework (ESMF)](https://www.earthsystemcog.org/projects/esmf/)
+NEMS is built using the [Earth System Modeling Framework (ESMF)](https://www.earthsystemmodeling.org)
 infrastructure software. ESMF provides utilities like generation of
-interpolation weights and utilities for calendar and timee management,
+interpolation weights and utilities for calendar and time management,
 and also wrappers that create a standard component calling
 interface. This enables model components developed at different sites
 to be coupled more easily.
 
-[The National Unified Operational Prediction Capability (NUOPC) Layer] (https://earthsystemcog.org/projects/nuopc/)
+The [National Unified Operational Prediction Capability (NUOPC) Layer] (https://earthsystemmodeling.org/nuopc/)
 adds additional rules about how ESMF models interact and increases
 their interoperability. The NUOPC Layer covers aspects from the level
 of build dependencies, to standardization of initialization phases,
@@ -70,7 +70,7 @@ as the Global Ensemble Forecast System (GEFS).
 Coupled NEMS includes atmosphere, ocean, ice, wave, land,
 aerosol/chemistry, and hydrologic models, with coupling interface and
 utilities based on the 
-[Earth System Modeling Framework (ESMF)](https://www.earthsystemcog.org/projects/esmf/).
+[Earth System Modeling Framework (ESMF)](https://www.earthsystemmodeling.org).
 The NEMS applications also utilize intreopereability conventions
 introduced by the 
-[National Unified Operational Prediction Capability (NUOPC)](https://www.earthsystemcog.org/projects/nuopc/).
+[National Unified Operational Prediction Capability (NUOPC)](https://www.earthsystemmodeling.org/nuopc/).

doc/nemsmain.md

@@ -3,19 +3,15 @@ NEMS Documentation
 
 This website describes the coupling infrastructure and
 techniques used in the
-[NOAA Environmental Modeling System (NEMS)](https://www.emc.ncep.noaa.gov/emc/pages/infrastructure/nems.php), which forms the back bone of the Unified Forecast System (UFS).
+[NOAA Environmental Modeling System (NEMS)](https://www.emc.ncep.noaa.gov/emc/pages/infrastructure/nems.php), which forms the backbone of the Unified Forecast System (UFS).
 NEMS coupling infrastructure is based on the
 [Earth System Modeling Framework (ESMF)](http://www.earthsystemmodeling.org/)
 and
-[National Unified Operational Prediction Capability (NUOPC)](https://www.earthsystemcog.org/projects/nuopc/)
-Layer code and conventions. The software is under active development,
-and is incorporating atmosphere, ocean, ice, wave and other models. The
-coupled system will be used for weather and longer range predictions.
+[National Unified Operational Prediction Capability (NUOPC)](https://www.earthsystemmodeling.org/nuopc/)
+Layer code and conventions. The software incorporates atmosphere, ocean, ice, wave and other models. The coupled system will be used for weather and longer range predictions.
 
 Everything in this doxgen-generated webpage is created from files
-within the NEMS repository.  That documentation is versioned with the
-code -- every time the code is updated, we update the documentation to
-match.  Further information outside this website can be found in links
+within the NEMS repository.  Further information outside this website can be found in links
 within the above paragraph.
 
 * @subpage documentation

doc/prep_inputs.py

@@ -35,7 +35,7 @@ def main():
         project_name='NEMS App '+app_name
     else:
         #project_number=nems_loc+'@'+nems_rev
-        project_number='Version 1.1.0'
+        project_number='Version 2.0.0'
         project_name=NEMS_PROJECT_NAME
 
     with open('Doxyfile','wt') as dw: