Adressed ACR's comments

docs/source/BuildMOM6.rst

@@ -90,7 +90,7 @@ After download the source code, users can navigate to the ``builds`` directory a
 
 .. code-block:: console
 
-   cd CEFI-regional-MOM6\builds
+   cd CEFI-regional-MOM6/builds
    mkdir YOUR_MACHINE_DIRECTORY
    cd YOUR_MACHINE_DIRECTORY
 
@@ -116,7 +116,7 @@ Once the two files are created, use the following command to build the model (Ma
 
 .. code-block:: console
 
-   cd CEFI-regional-MOM6\builds
+   cd CEFI-regional-MOM6/builds
    ./linux-build.bash -m YOUR_MACHINE_DIRECTORY -p NAME_OF_YOUR_mk_FILE -t repro -f mom6sis2
 
 If the build completes successfully, you should be able to find the executable here: ``builds/build/YOUR_MACHINE_DIRECTORY-NAME_OF_YOUR_mk_FILE/ocean_ice/repro/MOM6SIS2``  

docs/source/ContainerQuickstart.rst

@@ -29,15 +29,16 @@ To build and run the MOM6-COBALT using a Singularity/Apptainer container, first
 Build and run 1-D example using Docker 
 -----------------------------------------
 User can follow the following steps to build and run MOM6-SIS2-COBALT 1-D case within a Docker container.
+
 .. code-block::
 
-   #Assume user is under /USER_HOME_PATH
+   #Assume user is under $HOME 
    docker pull clouden90/1d_mom6_cobalt:base #This will pull docker image to your local machine
    git clone https://github.com/NOAA-GFDL/CEFI-regional-MOM6.git --recursive #git clone CEFI-regional-MOM6 repo
-   cd USER_HOME_PATH/CEFI-regional-MOM6/exps
+   cd $HOME/CEFI-regional-MOM6/exps
    wget https://gfdl-med.s3.amazonaws.com/OceanBGC_dataset/1d_datasets.tar.gz && tar -zxvf 1d_datasets.tar.gz && rm -rf 1d_datasets.tar.gz
-   cd USER_HOME_PATH
-   docker run --rm -v /USER_HOME_PATH:/work -it clouden90/1d_mom6_cobalt:v0.1 bash --login # run docker container interactively
+   cd $HOME
+   docker run --rm -v $HOME:/work -it clouden90/1d_mom6_cobalt:v0.1 bash --login # run docker container interactively
    cd /work/CEFI-regional-MOM6/builds
    ./linux-build.bash -m docker -p linux-gnu -t repro -f mom6sis2 #build MOM6-SIS2-COBALT
    cd /work/CEFI-regional-MOM6/exps
@@ -59,14 +60,14 @@ where ``/absolute/path/to/writable/directory/`` refers to a writable directory (
 Then User can follow the following steps to build and run MOM6-SIS2-COBALT 1-D case within a Singularity/Apptainer container.
 .. code-block::
 
-   #Assume user is under /USER_HOME_PATH
-   cd /USER_HOME_PATH
+   #Assume user is under $HOME 
+   cd $HOME 
    singularity pull 1d_mom6_cobalt.sif docker://clouden90/1d_mom6_cobalt:base #pull docker image and convert to sif
    git clone https://github.com/NOAA-GFDL/CEFI-regional-MOM6.git --recursive #git clone CEFI-regional-MOM6 repo 
-   cd USER_HOME_PATH/CEFI-regional-MOM6/exps
+   cd $HOME/CEFI-regional-MOM6/exps
    wget https://gfdl-med.s3.amazonaws.com/OceanBGC_dataset/1d_datasets.tar.gz && tar -zxvf 1d_datasets.tar.gz && rm -rf 1d_datasets.tar.gz
-   cd USER_HOME_PATH
-   singularity shell -B /USER_HOME_PATH:/work -e /USER_HOME_PATH/1d_mom6_cobalt.sif # start singularity/apptainer container interactively
+   cd $HOME 
+   singularity shell -B $HOME:/work -e $HOME/1d_mom6_cobalt.sif # start singularity/apptainer container interactively
    cd /work/CEFI-regional-MOM6/builds
    ./linux-build.bash -m docker -p linux-gnu -t repro -f mom6sis2 #build MOM6-SIS2-COBALT
    cd /work/CEFI-regional-MOM6/exps

docs/source/InputsOutputs.rst

@@ -79,7 +79,7 @@ Users are referred to this `link <https://github.com/jsimkins2/nwa25/blob/main/m
      - specify target depth for diag outputs
    * - grid_spec.nc
      - Contains information on the mosaic grid
-   * - ****_mosaic_tile1X****_mosaic_tile1.nc
+   * - \*\*\*\*\_mosaic\_tile1X\*\*\*\*\_mosaic\_tile1.nc 
      - grid files for the FMS coupler 
 
 .. _td-files:  
@@ -123,7 +123,7 @@ The script used to generate this file is shown in parentheses.
 Model_configure files
 ---------------------------
 
-The model configurstion files for regional MOM6-SIS2-COBALT configurations are listed and described in :numref:`Table %s <ModelConfig>`.
+The model configuration files for regional MOM6-SIS2-COBALT configurations are listed and described in :numref:`Table %s <ModelConfig>`.
 
 .. _ModelConfig:
 
@@ -170,6 +170,12 @@ Example Format:
    "ATM", "t_bot",  "t2m", "./INPUT/2t_ERA5.nc", "bilinear", 1.0
 
 
+Users can also set a constant value by entering empty quotes for ``fieldname_file`` and ``file_name`` and setting ``interpol_method`` to ``none``. Below is an example of setting a constant atmospheric oxygen value:
+
+.. code-block:: console
+
+   "ATM", "o2_flux_pcair_atm",  "",       "",                           "none",      0.214
+
 =============
 Outputs
 =============    

docs/source/RunNWA12.rst

@@ -59,3 +59,11 @@ Users may need to modify the run script according to their HPC machine configura
    #override LAYOUT    = 20,20
 
 Also, please ensure to modify your run script according to the changes in the model layout.
+
+here <https://github.com/NOAA-GFDL/CEFI-regional-MOM6/tree/feature/doc/xmls>`__
+
+Users can also use the `FRE-NCtools <https://github.com/NOAA-GFDL/FRE-NCtools>`__ to create their own mask_table to avoid wasting a lot of computational resources. The command for a 20x20 mask would be like the following:
+
+.. code-block:: console
+
+   check_mask --grid_file ocean_mosaic.nc --ocean_topog ocean_topog.nc --layout 20,20