libraries/med: Updated the patch for the newer hdf5.

Signed-off-by: Matteo Bernardini <ponce@slackbuilds.org>

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>

3 files changed, 118 insertions, 190 deletions

diff --git a/libraries/med/hdf5-1.12.patch b/libraries/med/hdf5-1.12.patch
deleted file mode 100644
index c3470f8570772..0000000000000
--- a/libraries/med/hdf5-1.12.patch
+++ /dev/null
@@ -1,189 +0,0 @@
-diff -rupN med-4.1.0/config/cmake_files/medMacros.cmake med-4.1.0-new/config/cmake_files/medMacros.cmake
---- med-4.1.0/config/cmake_files/medMacros.cmake	2021-12-03 09:35:30.675827163 +0100
-+++ med-4.1.0-new/config/cmake_files/medMacros.cmake	2021-12-03 09:32:31.894994147 +0100
-@@ -447,7 +447,7 @@ MACRO(MED_FIND_HDF5)
-     ##
-     ## Requires 1.10.x version
-     ##
--    IF (NOT HDF_VERSION_MAJOR_REF EQUAL 1 OR NOT HDF_VERSION_MINOR_REF EQUAL 10 OR NOT HDF_VERSION_RELEASE_REF GREATER 1)
-+    IF (HDF5_VERSION VERSION_LESS 1.10.2)
-         MESSAGE(FATAL_ERROR "HDF5 version is ${HDF_VERSION_REF}. Only versions >= 1.10.2 are supported.")
-     ENDIF()
-     ##
-diff -rupN med-4.1.0/src/ci/MEDfileCompatibility.c med-4.1.0-new/src/ci/MEDfileCompatibility.c
---- med-4.1.0/src/ci/MEDfileCompatibility.c	2021-12-03 09:35:30.676827162 +0100
-+++ med-4.1.0-new/src/ci/MEDfileCompatibility.c	2021-12-03 09:33:26.292942149 +0100
-@@ -71,7 +71,7 @@ MEDfileCompatibility(const char* const f
-   _hversionMMR=10000*_hmajeur+100*_hmineur+_hrelease;
-   /* ISCRUTE(_hversionMMR); */
-   /* ISCRUTE(HDF_VERSION_NUM_REF); */
--  if ( (_hversionMMR >= HDF_VERSION_NUM_REF) && (_hmineur == HDF_VERSION_MINOR_REF) ) *hdfok = MED_TRUE;
-+  if (_hversionMMR >= HDF_VERSION_NUM_REF) *hdfok = MED_TRUE;
- 
-   /* TODO : Vérifier si la version mineure HDF du fichier est supérieure
-      à la version mineure de la bibliothèque HDF utilisée :
-@@ -113,7 +113,7 @@ MEDfileCompatibility(const char* const f
- #if MED_NUM_MAJEUR != 4
- #error "Don't forget to update the test version here when you change the major version of the library !"
- #endif
--#if H5_VERS_MINOR > 10
-+#if H5_VERS_MINOR > 12
- #error "Don't forget to check the compatibility version of the library, depending on the internal hdf model choice !"
- #error "Cf. _MEDfileCreate ..."
- #endif
-diff -rupN med-4.1.0/src/hdfi/_MEDattributeNumWrByName.c med-4.1.0-new/src/hdfi/_MEDattributeNumWrByName.c
---- med-4.1.0/src/hdfi/_MEDattributeNumWrByName.c	2020-03-11 10:36:37.000000000 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDattributeNumWrByName.c	2021-12-03 09:33:08.851958696 +0100
-@@ -68,7 +68,7 @@ med_err _MEDattributeNumWrByName(med_idt
- 
-   if  ( (_attid=H5Aopen_by_name( pid, path, attname, H5P_DEFAULT, H5P_DEFAULT )) >= 0 ) {
- 
--    if ( H5Oget_info( pid, &_oinfo ) <0) {
-+    if ( H5Oget_info( pid, &_oinfo, H5O_INFO_ALL ) <0) {
- 	MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info");
- 	goto ERROR;
-     }
-diff -rupN med-4.1.0/src/hdfi/_MEDattributeNumWr.c med-4.1.0-new/src/hdfi/_MEDattributeNumWr.c
---- med-4.1.0/src/hdfi/_MEDattributeNumWr.c	2020-03-11 10:36:37.000000000 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDattributeNumWr.c	2021-12-03 09:33:11.840955852 +0100
-@@ -77,7 +77,7 @@ med_err _MEDattributeNumWr(med_idt pid,
- 
-   if  ( (_attid=H5Aopen( pid, attname, H5P_DEFAULT )) >= 0 ) {
- 
--    if ( H5Oget_info( pid, &_oinfo ) <0) {
-+    if ( H5Oget_info( pid, &_oinfo, H5O_INFO_ALL ) <0) {
- 	MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info");
- 	goto ERROR;
-     }
-diff -rupN med-4.1.0/src/hdfi/_MEDcheckAttributeStringFunc.c med-4.1.0-new/src/hdfi/_MEDcheckAttributeStringFunc.c
---- med-4.1.0/src/hdfi/_MEDcheckAttributeStringFunc.c	2020-03-11 10:36:37.000000000 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDcheckAttributeStringFunc.c	2021-12-03 09:33:14.266953546 +0100
-@@ -40,7 +40,7 @@ med_err _MEDcheckAttributeStringFunc(med
-     oinfo.type=H5G_LINK;
-     break;
-   case H5L_TYPE_HARD:
--    if ( H5Oget_info_by_name( id, lname, &oinfo, H5P_DEFAULT ) <0) {
-+    if ( H5Oget_info_by_name( id, lname, &oinfo, H5O_INFO_ALL, H5P_DEFAULT ) <0) {
-       MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info_by_name");
-       SSCRUTE(lname);
-     }
-diff -rupN med-4.1.0/src/hdfi/_MEDchecknSublinkFunc.c med-4.1.0-new/src/hdfi/_MEDchecknSublinkFunc.c
---- med-4.1.0/src/hdfi/_MEDchecknSublinkFunc.c	2020-03-11 10:36:36.000000000 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDchecknSublinkFunc.c	2021-12-03 09:33:16.487951437 +0100
-@@ -41,7 +41,7 @@ med_err _MEDchecknSublinkFunc(med_idt id
-     oinfo.type=H5G_LINK;
-     break;
-   case H5L_TYPE_HARD:
--    if ( H5Oget_info_by_name( id, lname, &oinfo, H5P_DEFAULT ) <0) {
-+    if ( H5Oget_info_by_name( id, lname, &oinfo, H5O_INFO_ALL, H5P_DEFAULT ) <0) {
-       MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info_by_name");
-       SSCRUTE(lname);
-     }
-diff -rupN med-4.1.0/src/hdfi/_MEDdatagroupExist.c med-4.1.0-new/src/hdfi/_MEDdatagroupExist.c
---- med-4.1.0/src/hdfi/_MEDdatagroupExist.c	2020-03-11 10:36:37.000000000 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDdatagroupExist.c	2021-12-03 09:33:18.742949298 +0100
-@@ -45,7 +45,7 @@ med_err _MEDdatagroupExist(const med_idt
- 
-     case H5L_TYPE_HARD:
-       *isasoftlink  = MED_FALSE;
--      if ( H5Oget_info_by_name( gid, datagroupname, &_oinfo, H5P_DEFAULT ) <0) {
-+      if ( H5Oget_info_by_name( gid, datagroupname, &_oinfo, H5O_INFO_ALL, H5P_DEFAULT ) <0) {
- 	MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info_by_name");
- 	SSCRUTE( datagroupname);
-       }
-diff -rupN med-4.1.0/src/hdfi/_MEDdatasetExist.c med-4.1.0-new/src/hdfi/_MEDdatasetExist.c
---- med-4.1.0/src/hdfi/_MEDdatasetExist.c	2020-03-11 10:36:37.000000000 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDdatasetExist.c	2021-12-03 09:33:24.158944167 +0100
-@@ -47,7 +47,7 @@ med_err _MEDdatasetExist(const med_idt
- 
-     case H5L_TYPE_HARD:
-       *isasoftlink  = MED_FALSE;
--      if ( H5Oget_info_by_name( gid, datasetname, &_oinfo, H5P_DEFAULT ) <0) {
-+      if ( H5Oget_info_by_name( gid, datasetname, &_oinfo, H5O_INFO_ALL, H5P_DEFAULT ) <0) {
- 	MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info_by_name");
- 	SSCRUTE( datasetname);
-       }
-diff -rupN med-4.1.0/src/hdfi/_MEDfileCreate.c med-4.1.0-new/src/hdfi/_MEDfileCreate.c
---- med-4.1.0/src/hdfi/_MEDfileCreate.c	2021-12-03 09:35:30.677827161 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDfileCreate.c	2021-12-03 09:32:31.894994147 +0100
-@@ -159,7 +159,7 @@ med_idt _MEDfileCreate(const char * cons
-    * En HDF5-1.10.0p1 cela n'a aucun effet ! 
-    * Un test autoconf permet de fixer un intervalle de version HDF à MED.
-    */
--#if H5_VERS_MINOR > 10
-+#if H5_VERS_MINOR > 12
- #error "Don't forget to change the compatibility version of the library !"
- #endif
-    
-diff -rupN med-4.1.0/src/hdfi/_MEDfileOpen.c med-4.1.0-new/src/hdfi/_MEDfileOpen.c
---- med-4.1.0/src/hdfi/_MEDfileOpen.c	2021-12-03 09:35:30.677827161 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDfileOpen.c	2021-12-03 09:32:31.894994147 +0100
-@@ -72,7 +72,7 @@ med_idt _MEDfileOpen(const char * const
- 
-    •   The creation order tracking property, H5P_CRT_ORDER_TRACKED, has been set in the group creation property list (see H5Pset_link_creation_order). 
-   */
--#if H5_VERS_MINOR > 10
-+#if H5_VERS_MINOR > 12
- #error "Don't forget to change the compatibility version of the library !"
- #endif
- /* L'avantage de bloquer le modèle interne HDF5 
-diff -rupN med-4.1.0/src/hdfi/_MEDlinkObjs.c med-4.1.0-new/src/hdfi/_MEDlinkObjs.c
---- med-4.1.0/src/hdfi/_MEDlinkObjs.c	2020-03-11 10:36:37.000000000 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDlinkObjs.c	2021-12-03 09:33:21.096947067 +0100
-@@ -62,7 +62,7 @@ med_err _MEDlinkobjs(med_idt id,const ch
-        sur un lien hard
-        Sur un lien soft H5O_TYPE_UNKNOWN
-     */
--    if ( H5Oget_info_by_name( id, lname, &oinfo, H5P_DEFAULT ) <0) {
-+    if ( H5Oget_info_by_name( id, lname, &oinfo, H5O_INFO_ALL, H5P_DEFAULT ) <0) {
-       MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info_by_name");
-       SSCRUTE(lname);
-     }
-diff -rupN med-4.1.0/src/hdfi/_MEDmemFileOpen.c med-4.1.0-new/src/hdfi/_MEDmemFileOpen.c
---- med-4.1.0/src/hdfi/_MEDmemFileOpen.c	2021-12-03 09:35:30.678827160 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDmemFileOpen.c	2021-12-03 09:32:31.894994147 +0100
-@@ -434,7 +434,7 @@ med_idt _MEDmemFileOpen(const char * con
-     goto ERROR;
-   }
- 
--#if H5_VERS_MINOR > 10
-+#if H5_VERS_MINOR > 12
- #error "Don't forget to change the compatibility version of the library !"
- #endif
-   if ( H5Pset_libver_bounds( _fapl, H5F_LIBVER_18, H5F_LIBVER_18) ) {
-diff -rupN med-4.1.0/src/hdfi/_MEDparFileCreate.c med-4.1.0-new/src/hdfi/_MEDparFileCreate.c
---- med-4.1.0/src/hdfi/_MEDparFileCreate.c	2021-12-03 09:35:30.678827160 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDparFileCreate.c	2021-12-03 09:32:31.894994147 +0100
-@@ -64,7 +64,7 @@ med_idt _MEDparFileCreate(const char * c
-    * En HDF5-1.10.0p1 cela n'a aucun effet ! 
-    * Un test autoconf permet de fixer un intervalle de version HDF à MED.
-    */
--#if H5_VERS_MINOR > 10
-+#if H5_VERS_MINOR > 12
- #error "Don't forget to change the compatibility version of the library !"
- #endif
-    
-diff -rupN med-4.1.0/src/hdfi/_MEDparFileOpen.c med-4.1.0-new/src/hdfi/_MEDparFileOpen.c
---- med-4.1.0/src/hdfi/_MEDparFileOpen.c	2021-12-03 09:35:30.679827159 +0100
-+++ med-4.1.0-new/src/hdfi/_MEDparFileOpen.c	2021-12-03 09:32:31.894994147 +0100
-@@ -55,7 +55,7 @@ med_idt _MEDparFileOpen(const char * con
-     MED_ERR_(_fid,MED_ERR_INIT,MED_ERR_PROPERTY,MED_ERR_PARALLEL_MSG);
-     goto ERROR;
-   }
--#if H5_VERS_MINOR > 10
-+#if H5_VERS_MINOR > 12
- #error "Don't forget to change the compatibility version of the library !"
- #endif
-   if ( H5Pset_libver_bounds( _fapl, H5F_LIBVER_18, H5F_LIBVER_18 ) ) {
-diff -rupN med-4.1.0/tools/medimport/2.3.6/_MEDconvertStringDatasets.c med-4.1.0-new/tools/medimport/2.3.6/_MEDconvertStringDatasets.c
---- med-4.1.0/tools/medimport/2.3.6/_MEDconvertStringDatasets.c	2020-03-11 10:36:40.000000000 +0100
-+++ med-4.1.0-new/tools/medimport/2.3.6/_MEDconvertStringDatasets.c	2021-12-03 09:34:42.715870908 +0100
-@@ -52,7 +52,7 @@ med_err _MEDconvertStringDatasets(med_id
-     oinfo.type=(H5O_type_t) H5G_LINK;
-     break;
-   case H5L_TYPE_HARD:
--    if ( H5Oget_info_by_name( id, lname, &oinfo, H5P_DEFAULT ) <0) {
-+    if ( H5Oget_info_by_name( id, lname, &oinfo, H5O_INFO_ALL, H5P_DEFAULT ) <0) {
-       MED_ERR_(_ret,MED_ERR_CALL,MED_ERR_API,"H5Oget_info_by_name");
-       SSCRUTE(lname);
-     }
diff --git a/libraries/med/hdf5-1.14.patch b/libraries/med/hdf5-1.14.patch
new file mode 100644
index 0000000000000..8a95866b7b0a4
--- /dev/null
+++ b/libraries/med/hdf5-1.14.patch
@@ -0,0 +1,117 @@
+From 5c9c1ce9911290283d39e16b1ed4c1d4ea5a5678 Mon Sep 17 00:00:00 2001
+From: Bernd Waibel <waebbl-gentoo@posteo.net>
+Date: Tue, 24 Aug 2021 08:32:13 +0200
+Subject: [PATCH] build against hdf5-1.12
+
+Signed-off-by: Bernd Waibel <waebbl-gentoo@posteo.net>
+---
+ config/cmake_files/medMacros.cmake | 4 ++--
+ src/ci/MEDfileCompatibility.c      | 2 +-
+ src/hdfi/_MEDfileCreate.c          | 2 +-
+ src/hdfi/_MEDfileOpen.c            | 2 +-
+ src/hdfi/_MEDmemFileOpen.c         | 2 +-
+ src/hdfi/_MEDparFileCreate.c       | 2 +-
+ src/hdfi/_MEDparFileOpen.c         | 2 +-
+ 7 files changed, 8 insertions(+), 8 deletions(-)
+
+diff --git a/config/cmake_files/medMacros.cmake b/config/cmake_files/medMacros.cmake
+index 957c59b..d73c7af 100644
+--- a/config/cmake_files/medMacros.cmake
++++ b/config/cmake_files/medMacros.cmake
+@@ -447,13 +447,13 @@ MACRO(MED_FIND_HDF5)
+     ##
+     ## Requires 1.10.x version
+     ##
+-    IF (NOT HDF_VERSION_MAJOR_REF EQUAL 1 OR NOT HDF_VERSION_MINOR_REF EQUAL 10 OR NOT HDF_VERSION_RELEASE_REF GREATER 1)
++    IF(HDF5_VERSION VERSION_LESS 1.10.2)
+         MESSAGE(FATAL_ERROR "HDF5 version is ${HDF_VERSION_REF}. Only versions >= 1.10.2 are supported.")
+     ENDIF()
+     ##
+     ##
+ 
+-    ADD_DEFINITIONS(-DH5_USE_16_API)  
++    ADD_DEFINITIONS(-DH5_USE_18_API -DH5_USE_16_API)
+     IF(WIN32 AND MEDFILE_BUILD_SHARED_LIBS)
+       ADD_DEFINITIONS(-D_HDF5USEDLL_ -DH5_BUILT_AS_DYNAMIC_LIB=1)   
+     ENDIF()
+diff --git a/src/ci/MEDfileCompatibility.c b/src/ci/MEDfileCompatibility.c
+index 1d6cabf..43b5b50 100644
+--- a/src/ci/MEDfileCompatibility.c
++++ b/src/ci/MEDfileCompatibility.c
+@@ -113,7 +113,7 @@ MEDfileCompatibility(const char* const filename,
+ #if MED_NUM_MAJEUR != 4
+ #error "Don't forget to update the test version here when you change the major version of the library !"
+ #endif
+-#if H5_VERS_MINOR > 10
++#if H5_VERS_MINOR > 14
+ #error "Don't forget to check the compatibility version of the library, depending on the internal hdf model choice !"
+ #error "Cf. _MEDfileCreate ..."
+ #endif
+diff --git a/src/hdfi/_MEDfileCreate.c b/src/hdfi/_MEDfileCreate.c
+index 4bc9551..b670c92 100644
+--- a/src/hdfi/_MEDfileCreate.c
++++ b/src/hdfi/_MEDfileCreate.c
+@@ -159,7 +159,7 @@ med_idt _MEDfileCreate(const char * const filename, const med_access_mode access
+    * En HDF5-1.10.0p1 cela n'a aucun effet ! 
+    * Un test autoconf permet de fixer un intervalle de version HDF à MED.
+    */
+-#if H5_VERS_MINOR > 10
++#if H5_VERS_MINOR > 14
+ #error "Don't forget to change the compatibility version of the library !"
+ #endif
+    
+diff --git a/src/hdfi/_MEDfileOpen.c b/src/hdfi/_MEDfileOpen.c
+index 8ace00e..ebd875b 100644
+--- a/src/hdfi/_MEDfileOpen.c
++++ b/src/hdfi/_MEDfileOpen.c
+@@ -72,7 +72,7 @@ med_idt _MEDfileOpen(const char * const filename,const med_access_mode accessmod
+ 
+    •   The creation order tracking property, H5P_CRT_ORDER_TRACKED, has been set in the group creation property list (see H5Pset_link_creation_order). 
+   */
+-#if H5_VERS_MINOR > 10
++#if H5_VERS_MINOR > 14
+ #error "Don't forget to change the compatibility version of the library !"
+ #endif
+ /* L'avantage de bloquer le modèle interne HDF5 
+diff --git a/src/hdfi/_MEDmemFileOpen.c b/src/hdfi/_MEDmemFileOpen.c
+index ae92ba7..4a929ff 100644
+--- a/src/hdfi/_MEDmemFileOpen.c
++++ b/src/hdfi/_MEDmemFileOpen.c
+@@ -434,7 +434,7 @@ med_idt _MEDmemFileOpen(const char * const filename, med_memfile * const memfile
+     goto ERROR;
+   }
+ 
+-#if H5_VERS_MINOR > 10
++#if H5_VERS_MINOR > 14
+ #error "Don't forget to change the compatibility version of the library !"
+ #endif
+   if ( H5Pset_libver_bounds( _fapl, H5F_LIBVER_18, H5F_LIBVER_18) ) {
+diff --git a/src/hdfi/_MEDparFileCreate.c b/src/hdfi/_MEDparFileCreate.c
+index f0b77be..b7d1b78 100644
+--- a/src/hdfi/_MEDparFileCreate.c
++++ b/src/hdfi/_MEDparFileCreate.c
+@@ -64,7 +64,7 @@ med_idt _MEDparFileCreate(const char * const filename, const med_access_mode acc
+    * En HDF5-1.10.0p1 cela n'a aucun effet ! 
+    * Un test autoconf permet de fixer un intervalle de version HDF à MED.
+    */
+-#if H5_VERS_MINOR > 10
++#if H5_VERS_MINOR > 14
+ #error "Don't forget to change the compatibility version of the library !"
+ #endif
+    
+diff --git a/src/hdfi/_MEDparFileOpen.c b/src/hdfi/_MEDparFileOpen.c
+index 0a9700d..4933692 100644
+--- a/src/hdfi/_MEDparFileOpen.c
++++ b/src/hdfi/_MEDparFileOpen.c
+@@ -55,7 +55,7 @@ med_idt _MEDparFileOpen(const char * const filename,const med_access_mode access
+     MED_ERR_(_fid,MED_ERR_INIT,MED_ERR_PROPERTY,MED_ERR_PARALLEL_MSG);
+     goto ERROR;
+   }
+-#if H5_VERS_MINOR > 10
++#if H5_VERS_MINOR > 14
+ #error "Don't forget to change the compatibility version of the library !"
+ #endif
+   if ( H5Pset_libver_bounds( _fapl, H5F_LIBVER_18, H5F_LIBVER_18 ) ) {
+-- 
+2.32.0
+
diff --git a/libraries/med/med.SlackBuild b/libraries/med/med.SlackBuild
index f11c9a013bc5b..687f7d8ec80dd 100644
--- a/libraries/med/med.SlackBuild
+++ b/libraries/med/med.SlackBuild
@@ -79,7 +79,7 @@ find -L . \
  \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \
   -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \;
 
-patch -p1 < $CWD/hdf5-1.12.patch
+patch -p1 < $CWD/hdf5-1.14.patch
 sed -i 's/if H5_VERS_MINOR > 10/if 0/g' src/ci/MEDfileCompatibility.c # :o
 
 export CPPFLAGS+=' -DH5_USE_110_API'