Merge branch 'develop' into develop

Author: JanRotti

.github/workflows/codeql.yml

@@ -34,7 +34,7 @@ jobs:
 
       - name: Configure (cpp)
         if: ${{ matrix.language == 'cpp' }}
-        run: ./meson.py build --optimization=1
+        run: ./meson.py setup build --optimization=1
 
       - name: Initialize CodeQL
         uses: github/codeql-action/init@v3

README.md

@@ -54,7 +54,7 @@ Short summary of the minimal requirements:
 If you have these tools installed, you can create a configuration using the `meson.py` found in the root source code folder:
 
 ```
-./meson.py build
+./meson.py setup build
 ```
 
 Use `ninja` to compile and install the code

externals/cgns/README

@@ -1,6 +1,6 @@
 **********************************************************************
-https://github.com/CGNS/CGNS/releases, 
-the source files for CGNS v4.2.0 are bundled and build directly into SU2
+https://github.com/CGNS/CGNS/releases,
+the source files for CGNS v4.5.0 are bundled and built directly into SU2
 
 From the CGNS webpage:
 

externals/cgns/adf/ADF_interface.c

@@ -96,6 +96,9 @@ static char ADF_A_identification[] = "\300\250\243\251ADF Database Version A0201
 /***********************************************************************
     Includes
 ***********************************************************************/
+#ifndef _WIN32
+  #define _POSIX_C_SOURCE 200112L
+#endif
 #include <stdio.h>
 #include <errno.h>
 #include <string.h>

externals/cgns/adf/ADF_internals.c

@@ -166,6 +166,9 @@ bytes   start   end   description      range / format
 /***********************************************************************
  	Includes
 ***********************************************************************/
+#ifndef _WIN32
+  #define _POSIX_C_SOURCE 200112L
+#endif
 #include <sys/types.h>
 #include <time.h>
 #include <stdio.h>

externals/cgns/adf/ADF_internals.h

@@ -525,7 +525,7 @@ extern  void    ADFI_increment_array(
             cgulong_t *element_offset,
             int *error_return ) ;
 
-extern  void    ADFI_is_block_in_core() ;
+extern  void    ADFI_is_block_in_core(void) ;
 
 extern  void    ADFI_little_endian_to_cray(
 	    const char from_format,
@@ -591,7 +591,7 @@ extern  void    ADFI_read_data_translated(
             char *data,
             int *error_return ) ;
 
-extern  void    ADFI_read_disk_block() ;
+extern  void    ADFI_read_disk_block(void) ;
 
 extern  void    ADFI_read_disk_pointer_from_disk(
             const unsigned int file_index,
@@ -707,7 +707,7 @@ extern  void    ADFI_write_data_translated(
             const char *data,
             int *error_return ) ;
 
-extern  void    ADFI_write_disk_block() ;
+extern  void    ADFI_write_disk_block(void) ;
 
 extern  void    ADFI_write_disk_pointer_2_disk(
             const unsigned int file_index,

externals/cgns/adfh/ADFH.c

@@ -21,7 +21,9 @@ freely, subject to the following restrictions:
 /*-------------------------------------------------------------------
  * HDF5 interface to ADF
  *-------------------------------------------------------------------*/
-
+#ifndef _WIN32
+  #define _POSIX_C_SOURCE 200112L
+#endif
 #include <stdio.h>
 #include <string.h>
 #include <math.h>
@@ -2180,33 +2182,13 @@ void ADFH_Database_Open(const char   *name,
   for (i = 0; buff[i]; i++)
     buff[i] = TO_UPPER(buff[i]);
 
-  if (0 == strcmp(buff, "UNKNOWN")) {
-    if (ACCESS(name, 0))
-      mode = ADFH_MODE_NEW;
-    else if (ACCESS(name, 2))
-      mode = ADFH_MODE_RDO;
-    else
-      mode = ADFH_MODE_OLD;
-  }
-  else if (0 == strcmp(buff, "NEW")) {
-    if (!ACCESS(name, 0)) {
-      set_error(REQUESTED_NEW_FILE_EXISTS, err);
-      return;
-    }
+  if (0 == strcmp(buff, "NEW")) {
     mode = ADFH_MODE_NEW;
   }
   else if (0 == strcmp(buff, "READ_ONLY")) {
-    if (ACCESS(name, 0)) {
-      set_error(REQUESTED_OLD_FILE_NOT_FOUND, err);
-      return;
-    }
     mode = ADFH_MODE_RDO;
   }
   else if (0 == strcmp(buff, "OLD")) {
-    if (ACCESS(name, 0)) {
-      set_error(REQUESTED_OLD_FILE_NOT_FOUND, err);
-      return;
-    }
     mode = ADFH_MODE_OLD;
   }
   else {

externals/cgns/cg_hash_types.h.in

@@ -7,9 +7,15 @@
 
 #define SIZEOF_LONG @SIZEOF_LONG@
 #define SIZEOF_VOID_P @SIZEOF_VOID_P@
+#if @BUILD64BIT@
 typedef int64_t map_ssize_t;
 typedef uint64_t map_usize_t;
 #define SIZEOF_MAP_USIZE_T 8
+#else
+typedef int32_t map_ssize_t;
+typedef uint32_t map_usize_t;
+#define SIZEOF_MAP_USIZE_T 4
+#endif
 typedef char char_name[33];
 
-#endif
+#endif

externals/cgns/cgns_error.c

@@ -17,6 +17,9 @@ freely, subject to the following restrictions:
 
 3. This notice may not be removed or altered from any source distribution.
 -------------------------------------------------------------------------*/
+/**
+ * \defgroup ErrorHandling Error Handling
+ **/
 
 #include <stdlib.h>
 #include <stdarg.h>
@@ -54,11 +57,35 @@ CGNSDLL void cgi_warning(const char *format, ...) {
     va_end(arg);
 }
 
-CGNSDLL const char *cg_get_error() {
+/**
+ * \ingroup ErrorHandling
+ *
+ * \brief If an error occurs during the execution of a CGNS library function,
+ * signified by a non-zero value of the error status variable \p ier, an error
+ * message may be retrieved using the function cg_get_error().
+ *
+ * \return The error message
+ */
+
+const char *cg_get_error() {
     return cgns_error_mess;
 }
 
-CGNSDLL void cg_error_exit() {
+/**
+ * \ingroup ErrorHandling
+ *
+ * \brief Print the error message and stop the execution of the program
+ *
+ * \note In C, you may define a function to be called automatically in the case of a
+ *       warning or error using the cg_configure() routine. The function is of the form
+ *       \code void err_func(int is_error, char *errmsg) \endcode and will be called whenever an error
+ *       or warning occurs. The first argument, \p is_error, will be 0 for warning messages,
+ *       1 for error messages, and -1 if the program is going to terminate
+ *       (i.e., a call to cg_error_exit()). The second argument is the error or warning message.
+ *
+ */
+
+void cg_error_exit() {
     if (cgns_error_handler)
         (*cgns_error_handler)(-1, cgns_error_mess);
     else
@@ -67,7 +94,21 @@ CGNSDLL void cg_error_exit() {
     exit(1);
 }
 
-CGNSDLL void cg_error_print() {
+/**
+ * \ingroup ErrorHandling
+ *
+ * \brief Print the error message and continue execution of the program
+ *
+ * \note In C, you may define a function to be called automatically in the case of a
+ *       warning or error using the cg_configure() routine. The function is of the form
+ *       \code void err_func(int is_error, char *errmsg) \endcode and will be called whenever an error
+ *       or warning occurs. The first argument, \p is_error, will be 0 for warning messages,
+ *       1 for error messages, and -1 if the program is going to terminate
+ *       (i.e., a call to cg_error_exit()). The second argument is the error or warning message.
+ *
+ */
+
+void cg_error_print() {
     fprintf(stderr,"%s\n",cgns_error_mess);
 }