User defined ops

.github/workflows/test-all.yaml

@@ -7,26 +7,38 @@ on:
       run_tests:
         description: 'Run all tests'
         required: true
+        default: 'no'
+      run_nCompile:
+        description: 'Run nCompile tests'
+        required: false
+        default: 'yes'
+      run_nClass:
+        description: 'Run nClass tests'
+        required: false
         default: 'yes'
+      run_math:
+        description: 'Run math tests'
+        required: false
+        default: 'no'
       run_tensorOps:
         description: 'Run tensorOps tests'
         required: false
-        default: 'yes'
+        default: 'no'
 
 jobs:
   test-nCompile:
     runs-on: ubuntu-latest
     container:
       image: rocker/r2u:latest
-    if: github.event.inputs.run_tests == 'yes'
+    if: github.event.inputs.run_tests == 'yes' || github.event.inputs.run_nCompile == 'yes'
     steps:
       - uses: actions/checkout@v3
       - name: SessionInfo
         run: R -q -e 'sessionInfo()'
       - name: Package Dependencies
         run: R -q -e 'remotes::install_deps("nCompiler", dependencies=TRUE)'
       - name: Install inline
-        run: R -q -e 'remotes::install_cran(c("inline", "nimble"))'
+        run: R -q -e 'remotes::install_cran("inline")'
       - name: Build Package
         run: |
             R CMD build nCompiler
@@ -44,7 +56,7 @@ jobs:
     runs-on: ubuntu-latest
     container:
       image: rocker/r2u:latest
-    if: github.event.inputs.run_tests == 'yes'
+    if: github.event.inputs.run_tests == 'yes' || github.event.inputs.run_nClass == 'yes'
     steps:
       - uses: actions/checkout@v3
       - name: SessionInfo
@@ -55,14 +67,15 @@ jobs:
       - name: Package Dependencies
         run: R -q -e 'remotes::install_deps("nCompiler", dependencies=TRUE)'
       - name: Install inline
-        run: R -q -e 'remotes::install_cran("inline")'
+        run: R -q -e 'remotes::install_cran(c("inline", "nimble"))'
       - name: Build Package
         run: |
             R CMD build nCompiler
             R CMD INSTALL --install-tests nCompiler_*.tar.gz
       - name: Run nCompile and other tests
         run: |
           library(nCompiler)
+          testthat::test_dir("nCompiler/tests/testthat/nimble_tests", reporter = "summary")
           testthat::test_dir("nCompiler/tests/testthat/nClass_tests", reporter = "summary")
           testthat::test_dir("nCompiler/tests/testthat/types_tests", reporter = "summary")
           testthat::test_dir("nCompiler/tests/testthat/serialization_tests", reporter = "summary")
@@ -72,7 +85,7 @@ jobs:
     runs-on: ubuntu-latest
     container:
       image: rocker/r2u:latest
-    if: github.event.inputs.run_tests == 'yes'
+    if: github.event.inputs.run_tests == 'yes' || github.event.inputs.run_math == 'yes'
     steps:
       - uses: actions/checkout@v3
       - name: SessionInfo

nCompiler/DESCRIPTION

@@ -6,7 +6,7 @@ Authors@R: c(person("Perry", "de Valpine", email = "pdevalpine@berkeley.edu", ro
              person("Christopher", "Paciorek", role = "ctb"),
              person("James", "Duncan", role = "ctr"))
 Description: Provides nFunction and nClass for function and class definitions for which C++ can be automatically generated, or used in combination with other C++.  Supports linear algebra by code-generating C++ that uses the Eigen library. Supports automatic differentiation by code-generating C++ that uses the CppAD library.  Support for parallelization is planned by code-generating C++ that uses Intel Threading Building Blocks (TBB).
-Depends: R (>= 3.3.0)
+Depends: R (>= 4.1.0)
 Imports:
     methods,R6,Rcpp,pkgKitten,roxygen2
 Suggests:
@@ -49,6 +49,10 @@ Collate:
     cppDefs_TBB.R
     cppDefs_variables.R
     developerTools.R
+    symbolTable.R
+    symbolTableClass.R
+    symbolTable_utils.R
+    typeDeclarations.R
     NC.R
     NC_Compile.R
     NC_CompilerClass.R
@@ -70,6 +74,7 @@ Collate:
     NF_Utils.R
     nCompile.R
     nConstructor.R
+    nimbleModels.R
     nList.R
     nTry.R
     packaging.R
@@ -78,11 +83,7 @@ Collate:
     Rcpp_nCompiler.R
     Rexecution.R
     Rhooks.R
-    symbolTable.R
-    symbolTableClass.R
-    symbolTable_utils.R
     testingTools.R
-    typeDeclarations.R
     compile_zzz_operatorLists.R
     zzz_NC_Predefined.R
 RoxygenNote: 7.3.2

nCompiler/NAMESPACE

@@ -55,7 +55,10 @@ export(isUserDefined)
 export(logfact)
 export(loggam)
 export(logit)
+export(makeModel_nClass)
+export(make_node_fun)
 export(method)
+export(modelBase_nClass)
 export(new.loadedObjectEnv) ## needed for Rcpp::Function access in loadedObjectEnv.h
 export(new.loadedObjectEnv_full) ## ditto
 export(nBacksolve)