Update Doxygen to 1.10 (#2253)

Update Doxygen to 1.10 and fix some documentation issues that popped up with the new version.

include/amici/misc.h

@@ -290,6 +290,10 @@ class CpuTimer {
         return d_milliseconds(clock::now() - start_).count();
     }
 
+    /**
+     * @brief Whether the timer uses a thread clock (i.e. provides proper,
+     * thread-specific CPU time).
+     */
     static bool const uses_thread_clock = true;
 
   private:
@@ -329,6 +333,10 @@ class CpuTimer {
                / CLOCKS_PER_SEC;
     }
 
+    /**
+     * @brief Whether the timer uses a thread clock (i.e. provides proper,
+     * thread-specific CPU time).
+     */
     static bool const uses_thread_clock = false;
 
   private:

include/amici/solver.h

@@ -48,7 +48,8 @@ class Solver {
   public:
     /** Type of what is passed to Sundials solvers as user_data */
     using user_data_type = std::pair<Model*, Solver const*>;
-
+    /** Type of the function to free a raw sundials solver pointer */
+    using free_solver_ptr = std::function<void(void*)>;
     /**
      * @brief Default constructor
      */
@@ -1608,10 +1609,10 @@ class Solver {
     void applySensitivityTolerances() const;
 
     /** pointer to solver memory block */
-    mutable std::unique_ptr<void, std::function<void(void*)>> solver_memory_;
+    mutable std::unique_ptr<void, free_solver_ptr> solver_memory_;
 
     /** pointer to solver memory block */
-    mutable std::vector<std::unique_ptr<void, std::function<void(void*)>>>
+    mutable std::vector<std::unique_ptr<void,free_solver_ptr>>
         solver_memory_B_;
 
     /** Sundials user_data */

scripts/downloadAndBuildDoxygen.sh

@@ -9,7 +9,7 @@ DOXYGEN_DIR="${AMICI_PATH}"/ThirdParty/doxygen
 cd "${AMICI_PATH}"/ThirdParty
 if [[ ! -d ${DOXYGEN_DIR} ]]; then
   git clone --single-branch \
-            --branch Release_1_9_7 \
+            --branch Release_1_10_0 \
             --depth 1 \
             -c advice.detachedHead=false \
             https://github.com/doxygen/doxygen.git "${DOXYGEN_DIR}"