Add dry and wet deposition processes

CMakeLists.txt

@@ -146,11 +146,19 @@ if(BUILD_NUOPC)
     PRIVATE
       $<TARGET_FILE:CATChem>
       $<TARGET_FILE:CATChem_process_seasalt>
+      $<TARGET_FILE:CATChem_process_drydep>
+      $<TARGET_FILE:CATChem_process_wetdep>
+      $<TARGET_FILE:CATChem_process_settling>
       $<TARGET_FILE:CATChem_core>
       $<TARGET_FILE:yaml_interface>
       $<TARGET_FILE:catchem_utilities>
   )
 
+  # Link GOCART2G library if available (needed for drydep process)
+  if(TARGET GOCART2G)
+    target_link_libraries(cc_nuopc PRIVATE $<TARGET_FILE:GOCART2G>)
+  endif()
+
   # Include directories for compilation
   target_include_directories(
     cc_nuopc

cmake/generate_metstate_macros.py

@@ -341,7 +341,7 @@ def classify_fields(fields):
     """
     # Categorical 3D fields with non-vertical dimensions (soil, land use, etc.)
     categorical_patterns = {
-        'SOILM', 'FRSOIL',                    # Soil-related
+        'SOILM', 'SOILT', 'FRSOIL',           # Soil-related
         'FRLANDUSE', 'FRLAI', 'FRZ0',         # Land use categories
     }
 
@@ -426,6 +426,7 @@ def get_field_description(name):
         'F_UNDER_PBLTOP': 'Fraction under PBL top [1]',
         # Categorical 3D fields
         'SOILM': 'Volumetric soil moisture [m3/m3] (nsoil layers)',
+        'SOILT': 'Temperature of soil layer [K] (nsoil layers)',
         'FRLANDUSE': 'Fractional land use [1] (nlanduse categories)',
         'FRSOIL': 'Fractional soil [1] (nsoil categories)',
         'FRLAI': 'LAI per land use type [m2/m2] (nlanduse categories)',
@@ -677,6 +678,7 @@ def write_virtualmet_type(fields, output_file):
     ----------
     fields : list of tuple
         List of (name, type_name, rank, dims, is_edge) for each field.
+        List of (name, type_name, rank, dims, is_edge) for each field.
     output_file : str
         Path to output .inc file.
     """
@@ -873,6 +875,7 @@ def write_virtualmet_cleanup(fields, output_file):
         f.write("! Generated VirtualMetType cleanup procedure\n")
         f.write("! This macro should be included in the virtual_met_cleanup subroutine\n")
         f.write("! Auto-generated from MetState field definitions\n")
+        f.write("! Now includes scalar fields since VirtualMet contains them\n")
         f.write("! Now includes scalar fields since VirtualMet contains them\n\n")
 
         # Nullify 3D atmospheric field pointers
@@ -1023,7 +1026,7 @@ def write_set_field_2d_real(fields, output_file):
                     f.write(f"         return\n")
                     f.write(f"      end if\n")
                     f.write(f"   end if\n")
-                elif name.lower() in ("frsoil", "soilm"):
+                elif name.lower() in ("frsoil", "soilm", "soilt"):
                     f.write(f"   if (.not. allocated(this%{name})) then\n")
                     f.write(f"      ! Allocate with default soil parameters if not already allocated\n")
                     f.write(f"      if (this%nSOILTYPE > 0) then\n")
@@ -1110,6 +1113,12 @@ def get_conditional_allocation_info(field_name):
             'dimension_var': 'this%nSOIL',
             'type': 'soil'
         },
+        'soilt': {
+            'condition': 'nsoil > 0',
+            'dimension': 'nsoil',
+            'dimension_var': 'this%nSOIL',
+            'type': 'soil'
+        },
         'frsoil': {
             'condition': 'nsoiltype > 0',
             'dimension': 'nsoiltype',

docs/processes/drydep/drydep.md

@@ -0,0 +1,267 @@
+# DryDep Process
+
+**Process Type:** Deposition
+**Description:** Process for computing dry deposition of gas and aerosol species
+**Author:** Wei Li
+**Generated:** 2025-11-25T22:20:02.547522
+
+## Overview
+
+The DryDep process implements Process for computing dry deposition of gas and aerosol species. This process provides a modular, extensible framework for deposition calculations within the CATChem chemical transport model.
+
+## Available Schemes
+
+### WESELY Scheme
+
+**Name:** `wesely`
+**Description:** Wesely 1989 gas dry deposition scheme
+**Author:** Wei Li
+**Reference:** Wesely, M. L. [1989] Parameterization of surface resistances to gaseous dry deposition...
+#### Parameters
+
+| Parameter | Default | Range | Description |
+|-----------|---------|--------|-------------|
+| `scale_factor` | 1.0 |  -  | DryDep velocity scale factor |
+| `co2_effect` | True |  -  | Apply CO2 effect on stomatal conductance |
+| `co2_level` | 600.0 |  -  | Ambient CO2 level for stomatal conductance adjustment |
+| `co2_reference` | 380.0 |  -  | Reference CO2 level for stomatal conductance adjustment |
+
+#### Required Meteorological Fields
+
+- `USTAR` - Meteorological field required for scheme computation
+- `TSTEP` - Meteorological field required for scheme computation
+- `TS` - Meteorological field required for scheme computation
+- `SWGDN` - Meteorological field required for scheme computation
+- `SUNCOSmid` - Meteorological field required for scheme computation
+- `OBK` - Meteorological field required for scheme computation
+- `CLDFRC` - Meteorological field required for scheme computation
+- `BXHEIGHT` - Meteorological field required for scheme computation
+- `Z0` - Meteorological field required for scheme computation
+- `PS` - Meteorological field required for scheme computation
+- `FRLAI` - Meteorological field required for scheme computation
+- `ILAND` - Meteorological field required for scheme computation
+- `SALINITY` - Meteorological field required for scheme computation
+- `FRLANDUSE` - Meteorological field required for scheme computation
+- `TSKIN` - Meteorological field required for scheme computation
+- `LON` - Meteorological field required for scheme computation
+- `LAT` - Meteorological field required for scheme computation
+- `LUCNAME` - Meteorological field required for scheme computation
+- `IsSnow` - Meteorological field required for scheme computation
+- `IsIce` - Meteorological field required for scheme computation
+- `IsLand` - Meteorological field required for scheme computation
+
+
+### GOCART Scheme
+
+**Name:** `gocart`
+**Description:** GOCART-2G aerosol dry deposition scheme
+**Author:** Wei Li & Lacey Holland
+**Reference:** Allison et al. [2024] Benchmarking GOCART-2G in GEOS
+#### Parameters
+
+| Parameter | Default | Range | Description |
+|-----------|---------|--------|-------------|
+| `scale_factor` | 1.0 |  -  | Dry deposition velocity scale factor |
+| `resuspension` | False |  -  | Apply resuspension for dry deposition |
+
+#### Required Meteorological Fields
+
+- `USTAR` - Meteorological field required for scheme computation
+- `TSTEP` - Meteorological field required for scheme computation
+- `T` - Meteorological field required for scheme computation
+- `AIRDEN` - Meteorological field required for scheme computation
+- `Z` - Meteorological field required for scheme computation
+- `LWI` - Meteorological field required for scheme computation
+- `PBLH` - Meteorological field required for scheme computation
+- `HFLUX` - Meteorological field required for scheme computation
+- `Z0H` - Meteorological field required for scheme computation
+- `U10M` - Meteorological field required for scheme computation
+- `V10M` - Meteorological field required for scheme computation
+- `FRLAKE` - Meteorological field required for scheme computation
+- `GWETTOP` - Meteorological field required for scheme computation
+
+
+### ZHANG Scheme
+
+**Name:** `zhang`
+**Description:** Zhang et al. [2001] scheme with Emerson et al. [2020] updates
+**Author:** Wei Li
+**Reference:** Zhang et al., 2001; Emerson et al., 2020
+#### Parameters
+
+| Parameter | Default | Range | Description |
+|-----------|---------|--------|-------------|
+| `scale_factor` | 1.0 |  -  | Dry deposition velocity scale factor |
+
+#### Required Meteorological Fields
+
+- `USTAR` - Meteorological field required for scheme computation
+- `TSTEP` - Meteorological field required for scheme computation
+- `TS` - Meteorological field required for scheme computation
+- `OBK` - Meteorological field required for scheme computation
+- `BXHEIGHT` - Meteorological field required for scheme computation
+- `Z0` - Meteorological field required for scheme computation
+- `RH` - Meteorological field required for scheme computation
+- `PS` - Meteorological field required for scheme computation
+- `U10M` - Meteorological field required for scheme computation
+- `V10M` - Meteorological field required for scheme computation
+- `FRLANDUSE` - Meteorological field required for scheme computation
+- `ILAND` - Meteorological field required for scheme computation
+- `LUCNAME` - Meteorological field required for scheme computation
+- `IsSnow` - Meteorological field required for scheme computation
+- `IsIce` - Meteorological field required for scheme computation
+
+
+
+## Process Interface
+
+### Species
+
+The drydep process operates on the following chemical species:
+
+
+### Required Inputs
+
+
+
+### Process Diagnostics
+
+| Diagnostic | Units | Description |
+|------------|-------|-------------|
+| `drydep_con_per_species` | ug/kg or ppm | Dry deposition concentration per species |
+| `drydep_velocity_per_species` | m/s | Dry deposition velocity |
+
+## Usage
+
+### Basic Integration
+
+```fortran
+use DryDepProcessCreator_Mod
+use DryDepCommon_Mod
+
+! Create process instance
+type(DryDepProcess_t) :: process
+call create_drydep_process(process, config_data)
+
+! Use process in model time step
+call process%run(state, dt)
+```
+
+### Scheme Selection
+
+The process supports multiple schemes. Select your desired scheme:
+
+```fortran
+! Use WESELY scheme
+process%scheme_name = "wesely"
+```
+```fortran
+! Use GOCART scheme
+process%scheme_name = "gocart"
+```
+```fortran
+! Use ZHANG scheme
+process%scheme_name = "zhang"
+```
+
+## Implementation Details
+
+### Pure Science Kernels
+
+Each scheme is implemented as a pure science kernel with no infrastructure dependencies:
+
+```fortran
+! WESELY scheme
+pure subroutine compute_wesely( &
+   num_layers, num_species, params, &
+   USTAR, &   TSTEP, &   TS, &   SWGDN, &   SUNCOSmid, &   OBK, &   CLDFRC, &   BXHEIGHT, &   Z0, &   PS, &   FRLAI, &   ILAND, &   SALINITY, &   FRLANDUSE, &   TSKIN, &   LON, &   LAT, &   LUCNAME, &   IsSnow, &   IsIce, &   IsLand, &
+   species_conc, emission_flux)
+```
+```fortran
+! GOCART scheme
+pure subroutine compute_gocart( &
+   num_layers, num_species, params, &
+   USTAR, &   TSTEP, &   T, &   AIRDEN, &   Z, &   LWI, &   PBLH, &   HFLUX, &   Z0H, &   U10M, &   V10M, &   FRLAKE, &   GWETTOP, &
+   species_conc, emission_flux)
+```
+```fortran
+! ZHANG scheme
+pure subroutine compute_zhang( &
+   num_layers, num_species, params, &
+   USTAR, &   TSTEP, &   TS, &   OBK, &   BXHEIGHT, &   Z0, &   RH, &   PS, &   U10M, &   V10M, &   FRLANDUSE, &   ILAND, &   LUCNAME, &   IsSnow, &   IsIce, &
+   species_conc, emission_flux)
+```
+
+### Host Model Responsibilities
+
+The host model (CATChem infrastructure) handles:
+
+- Parameter initialization and validation
+- Input array validation and error handling
+- Memory management and array allocation
+- Integration with model time stepping
+- Diagnostic output management
+
+## Configuration
+
+### YAML Configuration Example
+
+```yaml
+processes:
+  drydep:
+    enabled: true
+    scheme: "wesely"
+    parameters:
+      scale_factor: 1.0
+      co2_effect: True
+      co2_level: 600.0
+      co2_reference: 380.0
+    diagnostics:
+      enabled: true
+      output_frequency: "daily"
+```
+
+## Technical Specifications
+
+- **Parallelization:** Column
+- **Memory Requirements:** Low
+- **Timestep Dependency:** Independent
+- **Multiphase Support:** No
+- **Size Bin Support:** No
+- **Vectorization:** Supported
+
+## Files Generated
+
+### Source Code
+- `src/process/drydep/ProcessDryDepInterface_Mod.F90` - Main process interface
+- `src/process/drydep/DryDepCommon_Mod.F90` - Common types and parameters
+- `src/process/drydep/DryDepProcessCreator_Mod.F90` - Process factory
+- `src/process/drydep/schemes/DryDepScheme_WESELY_Mod.F90` - Wesely 1989 gas dry deposition scheme
+- `src/process/drydep/schemes/DryDepScheme_GOCART_Mod.F90` - GOCART-2G aerosol dry deposition scheme
+- `src/process/drydep/schemes/DryDepScheme_ZHANG_Mod.F90` - Zhang et al. [2001] scheme with Emerson et al. [2020] updates
+
+### Tests
+- `tests/process/drydep/unit/` - Unit tests
+- `tests/process/drydep/integration/` - Integration tests
+
+### Documentation
+- `docs/processes/drydep/drydep.md` - This documentation
+
+## Contributing
+
+When modifying or extending this process:
+
+1. **Science Changes:** Modify the scheme modules in `schemes/`
+2. **Interface Changes:** Update the main interface module
+3. **New Schemes:** Add new scheme modules and update the creator
+4. **Tests:** Add corresponding unit and integration tests
+5. **Documentation:** Update this documentation file
+
+## References
+
+- WESELY: Wesely, M. L. [1989] Parameterization of surface resistances to gaseous dry deposition...
+- GOCART: Allison et al. [2024] Benchmarking GOCART-2G in GEOS
+- ZHANG: Zhang et al., 2001; Emerson et al., 2020
+
+---
+*This documentation was automatically generated by the CATChem Process Generator on 2025-11-25T22:20:02.547522*

docs/processes/seasalt/seasalt.md

@@ -3,7 +3,7 @@
 **Process Type:** Emission
 **Description:** Process for computing sea salt aerosol emissions over ocean surfaces
 **Author:** Barry Baker & Wei Li
-**Generated:** 2025-11-14T23:01:21.952377
+**Generated:** 2025-12-15T16:09:09.913541
 
 ## Overview
 
@@ -227,4 +227,4 @@ When modifying or extending this process:
 - GEOS12: Jaeglé et al. [2011]
 
 ---
-*This documentation was automatically generated by the CATChem Process Generator on 2025-11-14T23:01:21.952377*
+*This documentation was automatically generated by the CATChem Process Generator on 2025-12-15T16:09:09.913541*