Add missing external tests directory

Try pinning lief
Disable cleanup step
Try removing some default setup-miniconda options

Author: langmm

.github/workflows/conda_recipe.yml

@@ -38,15 +38,15 @@ jobs:
           auto-update-conda: true
           channels: conda-forge
           channel-priority: strict
-          miniforge-version: latest
+          # miniforge-version: latest
           use-mamba: true
-          mamba-version: "1.5.10"
+          # mamba-version: "1.5.10"
           conda-remove-defaults: true
       - name: Install conda-build
         run: |
           mamba info
           mamba list
-          mamba install conda-build -y
+          mamba install conda-build py-lief=0.14 -y
       - name: Check mamba installation
         run: |
           mamba info

.github/workflows/test-suite.yml

@@ -103,15 +103,15 @@ jobs:
             with-asan: true
       fail-fast: false
     steps:
-      - name: Clean up unused software (Ubuntu)
-        uses: easimon/maximize-build-space@master
-        if: matrix.os == 'ubuntu-latest'
-        with:
-          remove-dotnet: 'true'
-          remove-android: 'true'
-          remove-haskell: 'true'
-          remove-codeql: 'true'
-          remove-docker-images: 'true'
+      # - name: Clean up unused software (Ubuntu)
+      #   uses: easimon/maximize-build-space@master
+      #   if: matrix.os == 'ubuntu-latest'
+      #   with:
+      #     remove-dotnet: 'true'
+      #     remove-android: 'true'
+      #     remove-haskell: 'true'
+      #     remove-codeql: 'true'
+      #     remove-docker-images: 'true'
       - name: Check out repository code
         uses: actions/checkout@v4
         with:
@@ -145,9 +145,9 @@ jobs:
           auto-update-conda: true
           channels: conda-forge
           channel-priority: strict
-          miniforge-version: latest
+          # miniforge-version: latest
           use-mamba: true
-          mamba-version: "1.5.10"
+          # mamba-version: "1.5.10"
           conda-remove-defaults: true
       - name: Set USERPROFILE
         if: matrix.os == 'windows-latest'

tests/external/CMakeLists.txt

@@ -0,0 +1,11 @@
+cmake_minimum_required(VERSION 3.10)
+
+project(ePhotosynthesisExample LANGUAGES CXX)
+set(CMAKE_CXX_STANDARD 14)
+set(CMAKE_CXX_STANDARD_REQUIRED ON)
+
+add_executable(example example.cpp)
+
+find_package(ePhotosynthesis REQUIRED)
+
+target_link_libraries(example PUBLIC ePhotosynthesis::EPhotosynthesis)

tests/external/example.cpp

@@ -0,0 +1,47 @@
+#include "ePhotosynthesis.hpp"
+
+
+using namespace ePhotosynthesis;
+
+int main(int argc, const char* argv[]) {
+    try {
+        double stoptime = 5000.0, begintime = 0.0, stepsize = 1.0;
+        double abstol = 1e-5, reltol = 1e-4;
+        int maxSubSteps = 750, RUBISCOMETHOD = 2;
+
+        std::map<std::string, std::string> inputs;
+        Variables *theVars = new Variables();
+
+        // Read files
+        theVars->readParam("data/InputEvn.txt", inputs);
+        theVars->readParam("data/InputATPCost.txt", inputs);
+        theVars->readEnzymeAct("data/InputEnzyme.txt");
+        theVars->readGRN("data/InputGRNC.txt");
+
+        double Tp = theVars->Tp;
+        theVars->record = false;
+        theVars->useC3 = true;
+        theVars->RUBISCOMETHOD = RUBISCOMETHOD;
+        modules::PR::setRUBISCOTOTAL(3);
+        
+        drivers::Driver *maindriver = new drivers::EPSDriver(
+            theVars, begintime, stepsize, stoptime,
+            maxSubSteps, abstol, reltol, 1, 1, Tp);
+
+        std::vector<double> ResultRate = maindriver->run();
+
+        std::ofstream outfile("example_output.data");
+        outfile << ResultRate[0] << std::endl;
+        outfile.close();
+
+        if (theVars != nullptr) {
+            maindriver->inputVars = nullptr;
+            delete theVars;
+        }
+        delete maindriver;
+        return (EXIT_SUCCESS);
+    } catch (std::exception& e) {
+        std::cout << "An error occurred: " << e.what() << std:: endl;
+        exit(EXIT_FAILURE);
+    }
+}