add VADER to SOCA

.travis.yml

@@ -20,7 +20,7 @@
 env:
   global:
     - MAIN_REPO=soca
-    - LIB_REPOS="gsw mom6 icepack oops ioda ufo saber"
+    - LIB_REPOS="gsw mom6 icepack oops vader ioda ufo saber"
     - BUILD_OPT="-DBUILD_ICEPACK=ON"
     - BUILD_OPT_mom6="-DENABLE_OCEAN_BGC=ON"
     - BUILD_OPT_oops="-DENABLE_QG_MODEL=OFF -DENABLE_LORENZ95_MODEL=OFF"

CMakeLists.txt

@@ -27,6 +27,7 @@ find_package( eckit  1.11.6   REQUIRED)
 find_package( fckit  0.7.0    REQUIRED)
 find_package( atlas  0.20.2   REQUIRED)
 find_package( oops   1.3.0    REQUIRED)
+find_package( vader  1.3.0    REQUIRED)
 find_package( saber  1.0.0    REQUIRED)
 find_package( ioda   1.0.0    REQUIRED)
 find_package( ufo    1.3.0    REQUIRED)

bundle/CMakeLists.txt

@@ -54,6 +54,7 @@ option(BUILD_UFSM6C6 "download and install the UFS" OFF)
 # required repositories
 
 ecbuild_bundle( PROJECT oops            GIT "https://github.com/jcsda-internal/oops.git"            UPDATE BRANCH develop )
+ecbuild_bundle( PROJECT vader           GIT "https://github.com/jcsda-internal/vader.git"           UPDATE BRANCH develop )
 ecbuild_bundle( PROJECT saber           GIT "https://github.com/jcsda-internal/saber.git"           UPDATE BRANCH develop )
 ecbuild_bundle( PROJECT ioda            GIT "https://github.com/jcsda-internal/ioda.git"            UPDATE BRANCH develop )
 ecbuild_bundle( PROJECT gsw             GIT "https://github.com/jcsda-internal/GSW-Fortran.git"     UPDATE BRANCH develop )

src/soca/CMakeLists.txt

@@ -42,6 +42,7 @@ target_link_libraries( soca PUBLIC oops )
 target_link_libraries( soca PUBLIC saber )
 target_link_libraries( soca PUBLIC ioda )
 target_link_libraries( soca PUBLIC ufo )
+target_link_libraries( soca PUBLIC vader )
 if ( BUILD_ICEPACK )
   target_link_libraries( soca PUBLIC icepack )
 endif()

src/soca/State/State.cc

@@ -257,4 +257,11 @@ namespace soca {
     // get field, with halo, and no masked values
     soca_state_to_fieldset_f90(toFortran(), vars_, fset.get(), false);
   }
+
+  // -----------------------------------------------------------------------------
+
+  void State::fromFieldSet(const atlas::FieldSet &fs) {
+    // set field, with halo, and no masked values
+    soca_state_from_fieldset_f90(toFortran(), vars_, fs.get(), false);
+  }
 }  // namespace soca

src/soca/State/State.h

@@ -101,8 +101,9 @@ namespace soca {
       void zero();
       void accumul(const double &, const State &);
 
-      /// Interfaces required for OOPS interpolation
+      /// ATLAS Interfaces
       void toFieldSet(atlas::FieldSet &) const;
+      void fromFieldSet(const atlas::FieldSet &);
 
    private:
       void print(std::ostream &) const override;

src/soca/State/StateFortran.h

@@ -71,6 +71,10 @@ namespace soca {
                                     const oops::Variables &,
                                     atlas::field::FieldSetImpl *,
                                     const bool &);
+    void soca_state_from_fieldset_f90(const F90flds &,
+                                   const oops::Variables &,
+                                   const atlas::field::FieldSetImpl *,
+                                   const bool &);
   }
 }  // namespace soca
 #endif  // SOCA_STATE_STATEFORTRAN_H_

src/soca/State/soca_state.interface.F90

@@ -481,4 +481,25 @@ subroutine soca_state_to_fieldset_c(c_key_self, c_vars, c_fieldset, c_masked) &
   call self%to_fieldset(vars, afieldset, logical(c_masked))
 end subroutine
 
+! ------------------------------------------------------------------------------
+!> C++ interface for soca_increment_mod::soca_increment::from_fieldset()
+subroutine soca_state_from_fieldset_c(c_key_self, c_vars, c_afieldset, c_masked) &
+  bind (c,name='soca_state_from_fieldset_f90')
+integer(c_int),         intent(in) :: c_key_self
+type(c_ptr),     value, intent(in) :: c_vars
+type(c_ptr),     value, intent(in) :: c_afieldset
+logical(c_bool),        intent(in) :: c_masked
+
+type(soca_state), pointer :: self
+type(oops_variables)          :: vars
+type(atlas_fieldset)          :: afieldset
+
+call soca_state_registry%get(c_key_self, self)
+vars = oops_variables(c_vars)
+afieldset = atlas_fieldset(c_afieldset)
+
+call self%from_fieldset(vars, afieldset, logical(c_masked))
+
+end subroutine
+
 end module soca_state_mod_c

src/soca/VariableChange/VariableChange.cc

@@ -22,6 +22,9 @@ namespace soca {
 
 VariableChange::VariableChange(const Parameters_ & params,
                                const Geometry & geometry) {
+  // setup vader
+  vader_.reset(new vader::Vader(params.vader));
+
   // Create the variable change
   variableChange_.reset(VariableChangeFactory::create(geometry,
       params.variableChangeParametersWrapper.variableChangeParameters.value()));
@@ -44,8 +47,27 @@ void VariableChange::changeVar(State & x, const oops::Variables & vars) const {
   // TODO(travis) rename in/out variables so that skipping this
   // works for Model2Ana (i.e. we need rotated/unrotate u/v renamed different)
   // // If the variables are the same, don't bother doing anything!
-  // if (!(x.variables() == vars)) {
-
+  // if (!(x.variables() == vars))
+
+  // call Vader
+  // ----------------------------------------------------------------------------
+  // Record start variables
+  oops::Variables varsFilled = x.variables();
+  oops::Variables varsVader = vars;
+  varsVader -= varsFilled;  // Pass only the needed variables
+
+  // Call Vader. On entry, varsVader holds the vars requested from Vader; on exit,
+  // it holds the vars NOT fulfilled by Vader, i.e., the vars still to be requested elsewhere.
+  // vader_->changeVar also returns the variables fulfilled by Vader. These variables are allocated
+  // and populated and added to the FieldSet (xfs).
+  atlas::FieldSet xfs;
+  x.toFieldSet(xfs);
+  varsFilled += vader_->changeVar(xfs, varsVader);
+  x.updateFields(varsFilled);
+  x.fromFieldSet(xfs);
+
+  // soca specific transforms
+  // ----------------------------------------------------------------------------
   // Create output state
   State xout(x.geometry(), vars, x.time());
 
@@ -56,7 +78,6 @@ void VariableChange::changeVar(State & x, const oops::Variables & vars) const {
   x.updateFields(vars);
   x = xout;
 
-  // }
 
   Log::trace() << "VariableChange::changeVar done" << std::endl;
 }
@@ -73,18 +94,41 @@ void VariableChange::changeVarInverse(State & x,
                << vars << std::endl;
 
   // If the variables are the same, don't bother doing anything!
-  if (!(x.variables() == vars)) {
-    // Create output state
-    State xout(x.geometry(), vars, x.time());
-
-    // Call variable change
-    variableChange_->changeVarInverse(x, xout);
-
-    // Copy data from temporary state
+  if (vars <= x.variables()) {
     x.updateFields(vars);
-    x = xout;
+    oops::Log::info() << "VariableChange::changeVarInverse done (identity)" << std::endl;
+    return;
   }
 
+  // call Vader
+  // ----------------------------------------------------------------------------
+  // Record start variables
+  oops::Variables varsFilled = x.variables();
+  oops::Variables varsVader = vars;
+  varsVader -= varsFilled;  // Pass only the needed variables
+
+  // Call Vader. On entry, varsVader holds the vars requested from Vader; on exit,
+  // it holds the vars NOT fulfilled by Vader, i.e., the vars still to be requested elsewhere.
+  // vader_->changeVar also returns the variables fulfilled by Vader. These variables are allocated
+  // and populated and added to the FieldSet (xfs).
+  atlas::FieldSet xfs;
+  x.toFieldSet(xfs);
+  varsFilled += vader_->changeVar(xfs, varsVader);
+  x.updateFields(varsFilled);
+  x.fromFieldSet(xfs);
+
+  // soca specific transforms
+  // -----------------------------------------------------------------------------
+  // Create output state
+  State xout(x.geometry(), vars, x.time());
+
+  // Call variable change
+  variableChange_->changeVarInverse(x, xout);
+
+  // Copy data from temporary state
+  x.updateFields(vars);
+  x = xout;
+
   Log::trace() << "VariableChange::changeVarInverse done" << std::endl;
 }
 

src/soca/VariableChange/VariableChange.h

@@ -18,8 +18,11 @@
 #include "oops/util/parameters/Parameters.h"
 #include "oops/util/Printable.h"
 
+#include "vader/vader.h"
+
 #include "soca/VariableChange/Base/VariableChangeBase.h"
 
+// Forward declarations
 namespace soca {
   class Geometry;
   class State;
@@ -32,6 +35,7 @@ class VariableChangeParameters : public oops::VariableChangeParametersBase {
  public:
   // Wrapper to VariableChange parameters
   VariableChangeParametersWrapper variableChangeParametersWrapper{this};
+  oops::Parameter<vader::VaderParameters> vader{"vader", {}, this};
 };
 
 // -----------------------------------------------------------------------------
@@ -51,6 +55,7 @@ class VariableChange : public util::Printable {
  private:
   void print(std::ostream &) const override;
   std::unique_ptr<VariableChangeBase> variableChange_;
+  std::unique_ptr<vader::Vader> vader_;
 };
 
 // -----------------------------------------------------------------------------