C header files:

- cleanup

src/C/Makefile.am

@@ -2,18 +2,14 @@
 if ENABLE_C
 # Header files that I wish to install in $(prefix)/include
 include_HEADERS =					\
-	$(top_srcdir)/src/include/H5.h			\
-	$(top_srcdir)/src/include/H5Block.h		\
 	$(top_srcdir)/src/include/H5Block_attribs.h	\
 	$(top_srcdir)/src/include/H5Block_io.h		\
 	$(top_srcdir)/src/include/H5Block_model.h	\
-	$(top_srcdir)/src/include/H5Fed.h		\
 	$(top_srcdir)/src/include/H5Fed_adjacency.h	\
 	$(top_srcdir)/src/include/H5Fed_model.h		\
 	$(top_srcdir)/src/include/H5Fed_retrieve.h	\
 	$(top_srcdir)/src/include/H5Fed_store.h		\
 	$(top_srcdir)/src/include/H5Fed_tags.h		\
-	$(top_srcdir)/src/include/H5Part.h		\
 	$(top_srcdir)/src/include/H5Part_io.h		\
 	$(top_srcdir)/src/include/H5Part_model.h	\
 	$(top_srcdir)/src/include/H5_debug.h		\

src/include/H5.h

-/*
-  Copyright (c) 2006-2016, The Regents of the University of California,
-  through Lawrence Berkeley National Laboratory (subject to receipt of any
-  required approvals from the U.S. Dept. of Energy) and the Paul Scherrer
-  Institut (Switzerland).  All rights reserved.
-
-  License: see file COPYING in top level of source distribution.
-*/
-
-#ifndef __H5_H
-#define __H5_H
-
-#ifdef __cplusplus
-extern "C" {
-#endif
-
-#include "H5_file.h"
-#include "H5_model.h"
-#include "H5_file_attribs.h"
-#include "H5_step_attribs.h"
-#include "H5_log.h"
-#include "H5_debug.h"
-#include "H5_error.h"
-
-#ifdef __cplusplus
-}
-#endif
-
-#endif

src/include/H5Block_attribs.h

@@ -22,6 +22,10 @@
    @{
 */
 
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 /*
   !   __ _      _     _         _   _        _ _           _            
   !  / _(_) ___| | __| |   __ _| |_| |_ _ __(_) |__  _   _| |_ ___  ___ 
@@ -725,5 +729,10 @@ H5Block3dGetFieldZCoords (
                                f, 2, field_name, H5BLOCK_FIELD_ZCOORD_NAME,
                                coords, n_coords));
 }
+
+#ifdef __cplusplus
+}
+#endif
+
 ///< @}
 #endif

src/include/H5Block_io.h

@@ -20,6 +20,10 @@
    @{
 */
 
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 /**
   Write the 3-dimensional field \p name from the buffer pointed to by
   \p buffer to the current step using the previously defined field
@@ -427,5 +431,9 @@ H5Block3dReadVector3dFieldInt32 (
 					     x_buf, y_buf, z_buf, H5T_NATIVE_INT32));
 }
 
+#ifdef __cplusplus
+}
+#endif
+
 ///< @}
 #endif

src/include/H5Block_model.h

@@ -396,10 +396,9 @@ H5BlockGetFieldInfoByName (
 			type));
 }
 
-///< @}
-
 #ifdef __cplusplus
 }
 #endif
 
+///< @}
 #endif

src/include/H5Fed.h

-/*
-  Copyright (c) 2006-2016, The Regents of the University of California,
-  through Lawrence Berkeley National Laboratory (subject to receipt of any
-  required approvals from the U.S. Dept. of Energy) and the Paul Scherrer
-  Institut (Switzerland).  All rights reserved.
-
-  License: see file COPYING in top level of source distribution.
-*/
-
-#ifndef __H5FED_H
-#define __H5FED_H
-
-#include "H5Fed_adjacency.h"
-#include "H5Fed_model.h"
-#include "H5Fed_retrieve.h"
-#include "H5Fed_store.h"
-#include "H5Fed_tags.h"
-
-#ifdef __cplusplus
-extern "C" {
-#endif
-
-/******	General routines *****************************************************/
-
-static inline h5_err_t
-H5FedOpenTetrahedralMesh (
-	const h5_file_t f,
-	const char* name,
-	h5t_mesh_t** mesh
-	) {
-	H5_API_ENTER (h5_err_t,
-                      "f=%p, name=%s, mesh=%p", 
-                      (h5_file_p)f, name, mesh);
-	H5_API_RETURN (h5t_open_tetrahedral_mesh (f, name, mesh));
-}
-
-static inline h5_err_t
-H5FedOpenTetrahedralMeshByIndex (
-	const h5_file_t f,
-	const h5_id_t idx,
-	h5t_mesh_t** mesh
-	) {
-	H5_API_ENTER (h5_err_t,
-                      "f=%p, idx=%lld, mesh=%p",
-                      (h5_file_p)f, (long long)idx, mesh);
-	H5_API_RETURN (h5t_open_tetrahedral_mesh_by_idx (f, idx, mesh));
-}
-
-static inline h5_err_t
-H5FedOpenTriangleMesh (
-	const h5_file_t f,
-	const char* name,
-	h5t_mesh_t** mesh
-	) {
-	H5_API_ENTER (h5_err_t,
-                      "f=%p, name=%s, mesh=%p",
-                      (h5_file_p)f, name, mesh);
-	H5_API_RETURN (h5t_open_triangle_mesh (f, name, mesh));
-}
-
-static inline h5_err_t
-H5FedOpenTriangleMeshPart (
-        const h5_file_t f,
-        const char* name,
-        h5t_mesh_t** mesh,
-        h5_glb_idx_t* const elem_indices,
-        const h5_glb_idx_t num_elems
-        ) {
-	H5_API_ENTER (h5_err_t,
-                      "f=%p, name=%s, mesh=%p",
-                      (h5_file_p)f, name, mesh);
-	H5_API_RETURN (h5t_open_triangle_mesh_part (f, name, mesh, elem_indices, num_elems));
-}
-
-static inline h5_err_t
-H5FedOpenTriangleMeshByIndex (
-	const h5_file_t f,
-	const h5_id_t idx,
-	h5t_mesh_t** mesh
-	) {
-	H5_API_ENTER (h5_err_t,
-                      "f=%p, idx=%lld, mesh=%p",
-                      (h5_file_p)f, (long long)idx, mesh);
-	H5_API_RETURN (h5t_open_triangle_mesh_by_idx (f, idx, mesh));
-}
-
-static inline h5_err_t
-H5FedCloseMesh (
-        h5t_mesh_t* const m
-        ) {
-	H5_API_ENTER (h5_err_t, "m=%p", m);
-	H5_API_RETURN (h5t_close_mesh (m));
-}
-
-static inline h5_err_t
-H5FedSetLevel (
-        h5t_mesh_t* const m,
-        const h5_lvl_idx_t level_id
-        ) {
-	H5_API_ENTER (h5_err_t, "m=%p, level_id=%d", m, level_id);
-	H5_API_RETURN (h5t_set_level (m, level_id));
-}
-
-static inline h5_err_t
-H5FedSetMeshChanged (
-        h5t_mesh_t* const m
-        ) {
-	H5_API_ENTER (h5_err_t, "m=%p", m);
-	H5_API_RETURN (h5t_set_mesh_changed (m));
-}
-
-#ifdef __cplusplus
-}
-#endif
-
-#endif
-
-
-
-
-
-
-
-
-
-
-
-

src/include/H5Fed_model.h

@@ -157,6 +157,93 @@ H5FedGetNumElementsTotal (
 	H5_API_RETURN (h5t_get_num_leaf_elems (m, -1));
 }
 
+static inline h5_err_t
+H5FedOpenTetrahedralMesh (
+	const h5_file_t f,
+	const char* name,
+	h5t_mesh_t** mesh
+	) {
+	H5_API_ENTER (h5_err_t,
+                      "f=%p, name=%s, mesh=%p", 
+                      (h5_file_p)f, name, mesh);
+	H5_API_RETURN (h5t_open_tetrahedral_mesh (f, name, mesh));
+}
+
+static inline h5_err_t
+H5FedOpenTetrahedralMeshByIndex (
+	const h5_file_t f,
+	const h5_id_t idx,
+	h5t_mesh_t** mesh
+	) {
+	H5_API_ENTER (h5_err_t,
+                      "f=%p, idx=%lld, mesh=%p",
+                      (h5_file_p)f, (long long)idx, mesh);
+	H5_API_RETURN (h5t_open_tetrahedral_mesh_by_idx (f, idx, mesh));
+}
+
+static inline h5_err_t
+H5FedOpenTriangleMesh (
+	const h5_file_t f,
+	const char* name,
+	h5t_mesh_t** mesh
+	) {
+	H5_API_ENTER (h5_err_t,
+                      "f=%p, name=%s, mesh=%p",
+                      (h5_file_p)f, name, mesh);
+	H5_API_RETURN (h5t_open_triangle_mesh (f, name, mesh));
+}
+
+static inline h5_err_t
+H5FedOpenTriangleMeshPart (
+        const h5_file_t f,
+        const char* name,
+        h5t_mesh_t** mesh,
+        h5_glb_idx_t* const elem_indices,
+        const h5_glb_idx_t num_elems
+        ) {
+	H5_API_ENTER (h5_err_t,
+                      "f=%p, name=%s, mesh=%p",
+                      (h5_file_p)f, name, mesh);
+	H5_API_RETURN (h5t_open_triangle_mesh_part (f, name, mesh, elem_indices, num_elems));
+}
+
+static inline h5_err_t
+H5FedOpenTriangleMeshByIndex (
+	const h5_file_t f,
+	const h5_id_t idx,
+	h5t_mesh_t** mesh
+	) {
+	H5_API_ENTER (h5_err_t,
+                      "f=%p, idx=%lld, mesh=%p",
+                      (h5_file_p)f, (long long)idx, mesh);
+	H5_API_RETURN (h5t_open_triangle_mesh_by_idx (f, idx, mesh));
+}
+
+static inline h5_err_t
+H5FedCloseMesh (
+        h5t_mesh_t* const m
+        ) {
+	H5_API_ENTER (h5_err_t, "m=%p", m);
+	H5_API_RETURN (h5t_close_mesh (m));
+}
+
+static inline h5_err_t
+H5FedSetLevel (
+        h5t_mesh_t* const m,
+        const h5_lvl_idx_t level_id
+        ) {
+	H5_API_ENTER (h5_err_t, "m=%p, level_id=%d", m, level_id);
+	H5_API_RETURN (h5t_set_level (m, level_id));
+}
+
+static inline h5_err_t
+H5FedSetMeshChanged (
+        h5t_mesh_t* const m
+        ) {
+	H5_API_ENTER (h5_err_t, "m=%p", m);
+	H5_API_RETURN (h5t_set_mesh_changed (m));
+}
+
 #ifdef __cplusplus
 }
 #endif

src/include/H5Part.h

-/*
-  Copyright (c) 2006-2016, The Regents of the University of California,
-  through Lawrence Berkeley National Laboratory (subject to receipt of any
-  required approvals from the U.S. Dept. of Energy) and the Paul Scherrer
-  Institut (Switzerland).  All rights reserved.
-
-  License: see file COPYING in top level of source distribution.
-*/
-
-#ifndef __H5PART_H
-#define __H5PART_H
-
-#include "H5Part_io.h"
-#include "H5Part_model.h"
-
-#endif

src/include/H5Part_io.h

@@ -206,5 +206,4 @@ H5PartReadDataInt32 (
 #endif
 
 ///< @}
-
 #endif

src/include/H5Part_model.h

@@ -410,5 +410,4 @@ H5PartSetCanonicalView (
 #endif
 
 ///< @}
-
 #endif

src/include/H5_debug.h

@@ -17,6 +17,10 @@
    @{
 */
 
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 /**
   Set debug mask. The debug mask is an or'ed value of
 
@@ -64,6 +68,9 @@ H5GetDebugMask (
 	return (h5_get_debuglevel () & ~0x03);
 }
 
-///< @}
+#ifdef __cplusplus
+}
+#endif
 
+///< @}
 #endif

src/include/H5_error.h

@@ -18,7 +18,11 @@
    \addtogroup h5_error
    @{
 */
-       
+
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 /**
   Report error, do not abort program. The error must be handled in the programm.
 
@@ -144,6 +148,9 @@ H5GetErrno (
 	return h5_get_errno ();
 }
 
+#ifdef __cplusplus
+}
+#endif
+
 ///< @}
-	
 #endif

src/include/H5_file.h

@@ -19,6 +19,10 @@
    @{
 */
 
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 #if H5HUT_API_VERSION == 2
 #define H5OpenFile2 H5OpenFile
 #elif H5HUT_API_VERSION == 1
@@ -397,6 +401,9 @@ H5Finalize (
 	H5_API_RETURN (h5_close_hdf5 ());
 }
 
-///< @}
+#ifdef __cplusplus
+}
+#endif
 
+///< @}
 #endif

src/include/H5_file_attribs.h

@@ -22,6 +22,10 @@
    @{
 */
 
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 /*
    __ _ _              _   _        _ _           _            
   / _(_) | ___    __ _| |_| |_ _ __(_) |__  _   _| |_ ___  ___ 
@@ -371,6 +375,10 @@ H5ReadFileAttribInt32 (
 			       H5_INT32_T,
 			       (void*)buffer));
 }
-///< @}
 
+#ifdef __cplusplus
+}
+#endif
+
+///< @}
 #endif

src/include/H5_log.h

@@ -24,6 +24,10 @@
    @{
  */
 
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 /**
   Set verbosity level to \c level.
 
@@ -87,7 +91,10 @@ H5GetVerbosityLevel (
 	return h5_get_debuglevel () & 0x03;
 }
 
-///< @}
+#ifdef __cplusplus
+}
+#endif
 
+///< @}
 #endif
 

src/include/H5_model.h

@@ -289,13 +289,12 @@ H5DeleteAttachment (
 	H5_API_ENTER (h5_err_t, "fname='%s'", fname);
 	H5_API_RETURN (h5_delete_attachment (f, fname));
 }
-
+	
 #ifdef __cplusplus
 }
 #endif
 
 ///< @}
-	
 #endif
 
 

src/include/H5_step_attribs.h

@@ -17,12 +17,15 @@
 #include "h5core/h5_debug.h"
 #include "h5core/h5_attribs.h"
 
-
 /**
    \addtogroup h5_step_attribs
    @{
 */
 
+#ifdef __cplusplus
+extern "C" {
+#endif
+
 /*
       _                     _   _        _ _           _            
   ___| |_ ___ _ __     __ _| |_| |_ _ __(_) |__  _   _| |_ ___  ___ 
@@ -376,10 +379,9 @@ H5ReadStepAttribInt32 (
 			       (void*)buffer));
 }
 
-///< @}
-
 #ifdef __cplusplus
 }
 #endif
 
+///< @}
 #endif

src/include/H5hut.h

@@ -14,9 +14,45 @@
 #define H5HUT_API_VERSION 2
 #endif
 
-#include "H5.h"
-#include "H5Part.h"
-#include "H5Block.h"
-#include "H5Fed.h"
+
+#include "H5_file.h"
+#include "H5_model.h"
+#include "H5_file_attribs.h"
+#include "H5_step_attribs.h"
+#include "H5_log.h"
+#include "H5_debug.h"
+#include "H5_error.h"
+
+#include "H5Part_io.h"
+#include "H5Part_model.h"
+
+/**
+  \ingroup h5block_model
+
+  \note
+  Different field sizes are allowed in the same time-step.
+
+  \note
+  The same layout can be used, if the size of the field matches the
+  size of the layout.  If the size of the layout doesn't match the
+  size of the field, an error will be indicated. 
+ 
+  \note In write mode views might be reduced to make them
+  non-overlaping, i.e. ghost-zones are eliminated. This may shrink
+  views in an unexpected way.
+
+  \todo
+  check whether layout is reasonable
+*/
+
+#include "H5Block_attribs.h"
+#include "H5Block_model.h"
+#include "H5Block_io.h"
+
+#include "H5Fed_adjacency.h"
+#include "H5Fed_model.h"
+#include "H5Fed_retrieve.h"
+#include "H5Fed_store.h"
+#include "H5Fed_tags.h"
 
 #endif