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Hello community,
here is the log from the commit of package hdf5 for openSUSE:Factory checked in
at 2024-05-15 21:27:01
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Comparing /work/SRC/openSUSE:Factory/hdf5 (Old)
and /work/SRC/openSUSE:Factory/.hdf5.new.1880 (New)
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Package is "hdf5"
Wed May 15 21:27:01 2024 rev:86 rq:1174039 version:1.12.3
Changes:
--------
--- /work/SRC/openSUSE:Factory/hdf5/hdf5.changes 2024-03-21
17:01:10.074008702 +0100
+++ /work/SRC/openSUSE:Factory/.hdf5.new.1880/hdf5.changes 2024-05-15
21:27:37.867838474 +0200
@@ -1,0 +2,38 @@
+Mon May 13 11:41:05 UTC 2024 - Atri Bhattacharya <badshah...@gmail.com>
+
+- Update to version 1.12.3:
+ * Bumped the minimum required version of Autoconf to 2.71.
+ * Added new option to build libaec and zlib inline with CMake.
+ * Changed the error handling for a not found path in the find
+ plugin process.
+ * Removed "-commons" linking option to fix a compile error on
+ MacOS Sonoma that resulted in build failure.
+ * Doxygen User Guide documentation can be configured and
+ generated.
+- Minor patch rebase for updated version:
+ * Disable-phdf5-tests.patch
+ * Fix-error-message-not-the-name-but-the-link-information-is-parsed.patch
+ * H5O_fsinfo_decode-Make-more-resilient-to-out-of-bounds-read.patch
+ * Hot-fix-for-CVE-2020-10812.patch
+ * PPC64LE-Fix-long-double-handling.patch
+ * Report-error-if-dimensions-of-chunked-storage-in-data-layout-2.patch
+ * Validate-location-offset-of-the-accumulated-metadata-when-comparing.patch
+ * When-evicting-driver-info-block-NULL-the-corresponding-entry.patch
+ * hdf5-1.8.11-abort_unknown_host_config.patch
+ * hdf5-LD_LIBRARY_PATH.patch
+ * hdf5-Remove-timestamps-from-binaries.patch
+ * hdf5-wrappers.patch
+- Drop upstreamed patches:
+ * Remove-duplicate-code.patch
+ * H5O__pline_decode-Make-more-resilient-to-out-of-bounds-read.patch
+ *
H5O_dtype_decode_helper-Parent-of-enum-needs-to-have-same-size-as-enum-itself.patch
+ *
Pass-compact-chunk-size-info-to-ensure-requested-elements-are-within-bounds.patch
+ * Make-sure-info-block-for-external-links-has-at-least-3-bytes.patch
+ * Compound-datatypes-may-not-have-members-of-size-0.patch
+ *
H5IMget_image_info-H5Sget_simple_extent_dims-does-not-exceed-array-size.patch
+ * Check-for-overflow-when-calculating-on-disk-attribute-data-size-2459.patch
+- New BuildRequires: hostname.
+- Work around an sed hack in upstream configure file by dropping
+ "-Werror=return-type" from RPM %optflags.
+
+-------------------------------------------------------------------
Old:
----
Check-for-overflow-when-calculating-on-disk-attribute-data-size-2459.patch
Compound-datatypes-may-not-have-members-of-size-0.patch
H5IMget_image_info-H5Sget_simple_extent_dims-does-not-exceed-array-size.patch
H5O__pline_decode-Make-more-resilient-to-out-of-bounds-read.patch
H5O_dtype_decode_helper-Parent-of-enum-needs-to-have-same-size-as-enum-itself.patch
Make-sure-info-block-for-external-links-has-at-least-3-bytes.patch
Pass-compact-chunk-size-info-to-ensure-requested-elements-are-within-bounds.patch
Remove-duplicate-code.patch
hdf5-1.12.2.tar.bz2
New:
----
hdf5-1.12.3.tar.bz2
BETA DEBUG BEGIN:
Old: *
H5IMget_image_info-H5Sget_simple_extent_dims-does-not-exceed-array-size.patch
* Check-for-overflow-when-calculating-on-disk-attribute-data-size-2459.patch
- New BuildRequires: hostname.
Old: * Make-sure-info-block-for-external-links-has-at-least-3-bytes.patch
* Compound-datatypes-may-not-have-members-of-size-0.patch
*
H5IMget_image_info-H5Sget_simple_extent_dims-does-not-exceed-array-size.patch
Old: * Compound-datatypes-may-not-have-members-of-size-0.patch
*
H5IMget_image_info-H5Sget_simple_extent_dims-does-not-exceed-array-size.patch
* Check-for-overflow-when-calculating-on-disk-attribute-data-size-2459.patch
Old: * Remove-duplicate-code.patch
* H5O__pline_decode-Make-more-resilient-to-out-of-bounds-read.patch
*
H5O_dtype_decode_helper-Parent-of-enum-needs-to-have-same-size-as-enum-itself.patch
Old: * H5O__pline_decode-Make-more-resilient-to-out-of-bounds-read.patch
*
H5O_dtype_decode_helper-Parent-of-enum-needs-to-have-same-size-as-enum-itself.patch
*
Pass-compact-chunk-size-info-to-ensure-requested-elements-are-within-bounds.patch
Old: *
Pass-compact-chunk-size-info-to-ensure-requested-elements-are-within-bounds.patch
* Make-sure-info-block-for-external-links-has-at-least-3-bytes.patch
* Compound-datatypes-may-not-have-members-of-size-0.patch
Old: *
H5O_dtype_decode_helper-Parent-of-enum-needs-to-have-same-size-as-enum-itself.patch
*
Pass-compact-chunk-size-info-to-ensure-requested-elements-are-within-bounds.patch
* Make-sure-info-block-for-external-links-has-at-least-3-bytes.patch
Old:- Drop upstreamed patches:
* Remove-duplicate-code.patch
* H5O__pline_decode-Make-more-resilient-to-out-of-bounds-read.patch
BETA DEBUG END:
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Other differences:
------------------
++++++ hdf5.spec ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:38.923876696 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:38.927876841 +0200
@@ -35,7 +35,7 @@
%define use_sz2 0
%define short_ver 1.12
-%define vers %{short_ver}.2
+%define vers %{short_ver}.3
%define _vers %( echo %{vers} | tr '.' '_' )
%define src_ver %{version}
%define pname hdf5
@@ -332,20 +332,13 @@
# Imported from Fedora, strip flags from h5cc wrapper
Patch10: hdf5-wrappers.patch
Patch101:
H5O_fsinfo_decode-Make-more-resilient-to-out-of-bounds-read.patch
-Patch102:
H5O__pline_decode-Make-more-resilient-to-out-of-bounds-read.patch
-Patch103:
H5O_dtype_decode_helper-Parent-of-enum-needs-to-have-same-size-as-enum-itself.patch
Patch104:
Report-error-if-dimensions-of-chunked-storage-in-data-layout-2.patch
Patch105:
When-evicting-driver-info-block-NULL-the-corresponding-entry.patch
-Patch106:
Pass-compact-chunk-size-info-to-ensure-requested-elements-are-within-bounds.patch
Patch107:
Validate-location-offset-of-the-accumulated-metadata-when-comparing.patch
-Patch108:
Make-sure-info-block-for-external-links-has-at-least-3-bytes.patch
Patch109: Hot-fix-for-CVE-2020-10812.patch
-Patch110: Compound-datatypes-may-not-have-members-of-size-0.patch
-Patch111:
H5IMget_image_info-H5Sget_simple_extent_dims-does-not-exceed-array-size.patch
-Patch112:
Check-for-overflow-when-calculating-on-disk-attribute-data-size-2459.patch
-Patch113: Remove-duplicate-code.patch
BuildRequires: fdupes
+BuildRequires: hostname
%if 0%{?use_sz2}
BuildRequires: libsz2-devel
%endif
@@ -583,18 +576,10 @@
%patch -P 9 -p1
%patch -P 10 -p1
%patch -P 101 -p1
-%patch -P 102 -p1
-%patch -P 103 -p1
%patch -P 104 -p1
%patch -P 105 -p1
-%patch -P 106 -p1
%patch -P 107 -p1
-%patch -P 108 -p1
%patch -P 109 -p1
-%patch -P 110 -p1
-%patch -P 111 -p1
-%patch -P 112 -p1
-%patch -P 113 -p1
%if %{without hpc}
# baselibs looks different for different flavors - generate it on the fly
@@ -624,7 +609,15 @@
export CC=gcc
export CXX=g++
export F9X=gfortran
-export CFLAGS="%{optflags}"
+# Ouch, how ugly! Upstream configure depends on hacking out Werror manually:
+# > configure.ac:## Strip out -Werror from CFLAGS since that can cause checks
to fail when
+# > configure.ac:CFLAGS="`echo $CFLAGS | sed -e 's/-Werror//g'`"
+# We need to clear out -Werror=return-type from our optflags otherwise we leave
+# a bare '=return-type' hanging in the options passed to GCC by configure
+export CFLAGS=`echo "%{optflags}" | sed -e 's/-Werror=return-type //'`
+export CXXFLAGS=`echo "%{optflags}" | sed -e 's/-Werror=return-type //'`
+export FFLAGS=`echo "%{optflags}" | sed -e 's/-Werror=return-type //'`
+export FCFLAGS=`echo "%{optflags}" | sed -e 's/-Werror=return-type //'`
%ifarch %arm
# we want to have useful H5_CFLAGS on arm too
test -e config/linux-gnueabi || cp config/linux-gnu config/linux-gnueabi
@@ -863,6 +856,7 @@
%{my_bindir}/h5repart
%{my_bindir}/h5stat
%{my_bindir}/h5unjam
+%{my_bindir}/h5watch
%files -n %{libname -s %{sonum}}
%doc ACKNOWLEDGMENTS README.md
++++++ Disable-phdf5-tests.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:38.959878000 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:38.963878145 +0200
@@ -8,11 +8,11 @@
Signed-off-by: Egbert Eich <e...@suse.com>
Signed-off-by: Egbert Eich <e...@suse.de>
---
-Index: hdf5-1.12.2/testpar/CMakeTests.cmake
+Index: hdf5-1.12.3/testpar/CMakeTests.cmake
===================================================================
---- hdf5-1.12.2.orig/testpar/CMakeTests.cmake
-+++ hdf5-1.12.2/testpar/CMakeTests.cmake
-@@ -43,7 +43,7 @@ foreach (skiptest ${SKIP_tests})
+--- hdf5-1.12.3.orig/testpar/CMakeTests.cmake
++++ hdf5-1.12.3/testpar/CMakeTests.cmake
+@@ -49,7 +49,7 @@ foreach (skiptest ${SKIP_tests})
set (SKIP_testphdf5 "${SKIP_testphdf5};-x;${skiptest}")
endforeach ()
@@ -21,11 +21,11 @@
set_tests_properties (MPI_TEST_testphdf5 PROPERTIES
FIXTURES_REQUIRED par_clear_testphdf5
ENVIRONMENT "HDF5_ALARM_SECONDS=3600;srcdir=${HDF5_TEST_PAR_BINARY_DIR}"
-Index: hdf5-1.12.2/testpar/Makefile.am
+Index: hdf5-1.12.3/testpar/Makefile.am
===================================================================
---- hdf5-1.12.2.orig/testpar/Makefile.am
-+++ hdf5-1.12.2/testpar/Makefile.am
-@@ -30,7 +30,7 @@ check_SCRIPTS = $(TEST_SCRIPT_PARA)
+--- hdf5-1.12.3.orig/testpar/Makefile.am
++++ hdf5-1.12.3/testpar/Makefile.am
+@@ -29,7 +29,7 @@ check_SCRIPTS = $(TEST_SCRIPT_PARA)
# Test programs. These are our main targets.
#
++++++ Fix-error-message-not-the-name-but-the-link-information-is-parsed.patch
++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:38.975878579 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:38.979878723 +0200
@@ -11,11 +11,11 @@
---
src/H5Olink.c | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
-diff --git a/src/H5Olink.c b/src/H5Olink.c
-index 51c44a36b0..ee2a413dc1 100644
---- a/src/H5Olink.c
-+++ b/src/H5Olink.c
-@@ -245,7 +245,7 @@ H5O__link_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED *open_oh,
unsigned H5_ATTR_UNUSE
+Index: hdf5-1.12.3/src/H5Olink.c
+===================================================================
+--- hdf5-1.12.3.orig/src/H5Olink.c
++++ hdf5-1.12.3/src/H5Olink.c
+@@ -244,7 +244,7 @@ H5O__link_decode(H5F_t *f, H5O_t H5_ATTR
/* Make sure that length doesn't exceed buffer size, which
could
occur when the file is corrupted */
if (p + len > p_end)
++++++ H5O_fsinfo_decode-Make-more-resilient-to-out-of-bounds-read.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:38.995879303 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:38.999879448 +0200
@@ -19,11 +19,11 @@
---
src/H5Ofsinfo.c | 14 +++++++++++++-
1 file changed, 13 insertions(+), 1 deletion(-)
-diff --git a/src/H5Ofsinfo.c b/src/H5Ofsinfo.c
-index 9f6514a291..15cbb5ae7b 100644
---- a/src/H5Ofsinfo.c
-+++ b/src/H5Ofsinfo.c
-@@ -88,6 +88,13 @@ H5FL_DEFINE_STATIC(H5O_fsinfo_t);
+Index: hdf5-1.12.3/src/H5Ofsinfo.c
+===================================================================
+--- hdf5-1.12.3.orig/src/H5Ofsinfo.c
++++ hdf5-1.12.3/src/H5Ofsinfo.c
+@@ -87,6 +87,13 @@ H5FL_DEFINE_STATIC(H5O_fsinfo_t);
*
*-------------------------------------------------------------------------
*/
@@ -37,7 +37,7 @@
static void *
H5O__fsinfo_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED *open_oh, unsigned
H5_ATTR_UNUSED mesg_flags,
unsigned H5_ATTR_UNUSED *ioflags, size_t p_size, const
uint8_t *p)
-@@ -112,6 +119,7 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED
*open_oh, unsigned H5_ATTR_UNU
+@@ -111,6 +118,7 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_AT
fsinfo->fs_addr[ptype - 1] = HADDR_UNDEF;
/* Version of message */
@@ -45,7 +45,7 @@
vers = *p++;
if (vers == H5O_FSINFO_VERSION_0) {
-@@ -125,6 +133,7 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED
*open_oh, unsigned H5_ATTR_UNU
+@@ -124,6 +132,7 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_AT
fsinfo->pgend_meta_thres = H5F_FILE_SPACE_PGEND_META_THRES;
fsinfo->eoa_pre_fsm_fsalloc = HADDR_UNDEF;
@@ -53,7 +53,7 @@
strategy = (H5F_file_space_type_t)*p++; /* File space strategy */
H5F_DECODE_LENGTH(f, p, threshold); /* Free-space section
threshold */
-@@ -170,6 +179,7 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED
*open_oh, unsigned H5_ATTR_UNU
+@@ -169,6 +178,7 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_AT
HDassert(vers >= H5O_FSINFO_VERSION_1);
fsinfo->version = vers;
@@ -61,7 +61,7 @@
fsinfo->strategy = (H5F_fspace_strategy_t)*p++; /* File space
strategy */
fsinfo->persist = *p++; /* Free-space persist
or not */
H5F_DECODE_LENGTH(f, p, fsinfo->threshold); /* Free-space section
threshold */
-@@ -181,9 +191,11 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED
*open_oh, unsigned H5_ATTR_UNU
+@@ -180,9 +190,11 @@ H5O__fsinfo_decode(H5F_t *f, H5O_t H5_AT
/* Decode addresses of free space managers, if persisting */
if (fsinfo->persist)
++++++ Hot-fix-for-CVE-2020-10812.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.015880027 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.019880172 +0200
@@ -28,11 +28,11 @@
---
src/H5Fint.c | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
-diff --git a/src/H5Fint.c b/src/H5Fint.c
-index 9b5613972f..01faf33495 100644
---- a/src/H5Fint.c
-+++ b/src/H5Fint.c
-@@ -1413,7 +1413,7 @@ H5F__dest(H5F_t *f, hbool_t flush)
+Index: hdf5-1.12.3/src/H5Fint.c
+===================================================================
+--- hdf5-1.12.3.orig/src/H5Fint.c
++++ hdf5-1.12.3/src/H5Fint.c
+@@ -1412,7 +1412,7 @@ H5F__dest(H5F_t *f, hbool_t flush, hbool
*/
if (H5AC_prep_for_file_close(f) < 0)
/* Push error, but keep going */
++++++ PPC64LE-Fix-long-double-handling.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.039880895 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.043881041 +0200
@@ -7,49 +7,15 @@
Signed-off-by: Egbert Eich <e...@suse.com>
---
- hdf5-1.10.1/config/cmake/ConversionTests.c | 16 ++++++++++++++++
- hdf5-1.10.1/test/dt_arith.c | 26 ++++++++++++++++++++++++--
- 2 files changed, 40 insertions(+), 2 deletions(-)
+ config/cmake/ConversionTests.c | 16 ++++++++++++++++
+ test/dt_arith.c | 27 +++++++++++++++++++++++++--
+ 2 files changed, 41 insertions(+), 2 deletions(-)
-Index: hdf5-1.12.2/config/cmake/ConversionTests.c
+Index: hdf5-1.12.3/test/dt_arith.c
===================================================================
---- hdf5-1.12.2.orig/config/cmake/ConversionTests.c
-+++ hdf5-1.12.2/config/cmake/ConversionTests.c
-@@ -34,6 +34,14 @@ int HDF_NO_UBSAN main(void)
- unsigned char s2[8];
- int ret = 1;
-
-+#if defined __powerpc64__ && defined _LITTLE_ENDIAN
-+ /* Don't bother checking on ppc64le, we know it'll work, and
-+ that what hdf5 calls 'special algorithm' simply is
-+ IBM ldouble 128 (i.e. two seperately scaled doubles).
-+ The check below assumes big endian. */
-+ ret = 0;
-+#endif
-+
- if(sizeof(long double) == 16 && sizeof(long) == 8) {
- /*make sure the long double type has 16 bytes in size and
- * 11 bits of exponent. If it is,
-@@ -157,6 +165,14 @@ int HDF_NO_UBSAN main(void)
- unsigned char s[16];
- int ret = 0;
-
-+#if defined __powerpc64__ && defined _LITTLE_ENDIAN
-+ /* Don't bother checking on ppc64le, we know it'll work, and
-+ that what hdf5 calls 'special algorithm' simply is
-+ IBM ldouble 128 (i.e. two seperately scaled doubles).
-+ The check below assumes big endian. */
-+ ret = 0;
-+#endif
-+
- if(sizeof(long double) == 16) {
- /*make sure the long double type is the same as the failing type
- *which has 16 bytes in size and 11 bits of exponent. If it is,
-Index: hdf5-1.12.2/test/dt_arith.c
-===================================================================
---- hdf5-1.12.2.orig/test/dt_arith.c
-+++ hdf5-1.12.2/test/dt_arith.c
-@@ -3036,7 +3036,19 @@ test_conv_flt_1(const char *name, int ru
+--- hdf5-1.12.3.orig/test/dt_arith.c
++++ hdf5-1.12.3/test/dt_arith.c
+@@ -3035,7 +3035,19 @@ test_conv_flt_1(const char *name, int ru
#if H5_SIZEOF_LONG_DOUBLE != H5_SIZEOF_DOUBLE
}
else if (src_type == FLT_LDOUBLE) {
@@ -70,7 +36,7 @@
#endif
}
else
-@@ -3736,7 +3748,18 @@ test_conv_int_fp(const char *name, int r
+@@ -3735,7 +3747,18 @@ test_conv_int_fp(const char *name, int r
nelmts);
}
else {
@@ -90,4 +56,38 @@
}
#endif
}
+Index: hdf5-1.12.3/config/cmake/ConversionTests.c
+===================================================================
+--- hdf5-1.12.3.orig/config/cmake/ConversionTests.c
++++ hdf5-1.12.3/config/cmake/ConversionTests.c
+@@ -34,6 +34,14 @@ int HDF_NO_UBSAN main(void)
+ unsigned char s2[8];
+ int ret = 1;
+
++#if defined __powerpc64__ && defined _LITTLE_ENDIAN
++ /* Don't bother checking on ppc64le, we know it'll work, and
++ that what hdf5 calls 'special algorithm' simply is
++ IBM ldouble 128 (i.e. two seperately scaled doubles).
++ The check below assumes big endian. */
++ ret = 0;
++#endif
++
+ if (sizeof(long double) == 16 && sizeof(long) == 8) {
+ /* Make sure the long double type has 16 bytes in size and
+ * 11 bits of exponent. If it is, the bit sequence should be
+@@ -174,6 +182,14 @@ int HDF_NO_UBSAN main(void)
+ unsigned char s[16];
+ int ret = 0;
+
++#if defined __powerpc64__ && defined _LITTLE_ENDIAN
++ /* Don't bother checking on ppc64le, we know it'll work, and
++ that what hdf5 calls 'special algorithm' simply is
++ IBM ldouble 128 (i.e. two seperately scaled doubles).
++ The check below assumes big endian. */
++ ret = 0;
++#endif
++
+ if (sizeof(long double) == 16) {
+ /* Make sure the long double type is the same as the failing type
+ * which has 16 bytes in size and 11 bits of exponent. If it is,
++++++ Report-error-if-dimensions-of-chunked-storage-in-data-layout-2.patch
++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.059881619 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.067881909 +0200
@@ -19,31 +19,21 @@
Signed-off-by: Egbert Eich <e...@suse.com>
Signed-off-by: Egbert Eich <e...@suse.de>
---
- src/H5Olayout.c | 7 +++++++
- 1 file changed, 7 insertions(+)
-diff --git a/src/H5Olayout.c b/src/H5Olayout.c
-index c939e72744..9fa9e36e8c 100644
---- a/src/H5Olayout.c
-+++ b/src/H5Olayout.c
-@@ -168,6 +168,10 @@ H5O__layout_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED
*open_oh, unsigned H5_ATTR_UNU
- p += ndims * 4; /* Skip over dimension sizes (32-bit quantities)
*/
- } /* end if */
- else {
-+ if (ndims < 2)
-+ HGOTO_ERROR(H5E_OHDR, H5E_CANTLOAD, NULL,
-+ "bad dimensions for chunked storage")
-+
- mesg->u.chunk.ndims = ndims;
- for (u = 0; u < ndims; u++)
- UINT32DECODE(p, mesg->u.chunk.dim[u]);
-@@ -241,6 +245,9 @@ H5O__layout_decode(H5F_t *f, H5O_t H5_ATTR_UNUSED
*open_oh, unsigned H5_ATTR_UNU
- mesg->u.chunk.ndims = *p++;
- if (mesg->u.chunk.ndims > H5O_LAYOUT_NDIMS)
- HGOTO_ERROR(H5E_OHDR, H5E_CANTLOAD, NULL,
"dimensionality is too large")
+ src/H5Olayout.c | 4 ++++
+ 1 file changed, 4 insertions(+)
+Index: hdf5-1.12.3/src/H5Olayout.c
+===================================================================
+--- hdf5-1.12.3.orig/src/H5Olayout.c
++++ hdf5-1.12.3/src/H5Olayout.c
+@@ -291,6 +291,10 @@ H5O__layout_decode(H5F_t *f, H5O_t H5_AT
+ if (mesg->u.chunk.ndims < 2)
+ HGOTO_ERROR(H5E_OHDR, H5E_BADVALUE, NULL, "bad
dimensions for chunked storage")
+
+ if (mesg->u.chunk.ndims < 2)
+ HGOTO_ERROR(H5E_OHDR, H5E_CANTLOAD, NULL,
+ "bad dimensions for chunked storage")
-
++
/* B-tree address */
- H5F_addr_decode(f, &p, &(mesg->storage.u.chunk.idx_addr));
+ if (H5_IS_BUFFER_OVERFLOW(p, H5F_SIZEOF_ADDR(f), p_end))
+ HGOTO_ERROR(H5E_OHDR, H5E_OVERFLOW, NULL,
++++++
Validate-location-offset-of-the-accumulated-metadata-when-comparing.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.079882343 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.083882488 +0200
@@ -22,11 +22,11 @@
---
src/H5Faccum.c | 19 +++++++++++++------
1 file changed, 13 insertions(+), 6 deletions(-)
-diff --git a/src/H5Faccum.c b/src/H5Faccum.c
-index aed5812e63..73bd4b811e 100644
---- a/src/H5Faccum.c
-+++ b/src/H5Faccum.c
-@@ -48,6 +48,7 @@
+Index: hdf5-1.12.3/src/H5Faccum.c
+===================================================================
+--- hdf5-1.12.3.orig/src/H5Faccum.c
++++ hdf5-1.12.3/src/H5Faccum.c
+@@ -47,6 +47,7 @@
#define H5F_ACCUM_THROTTLE 8
#define H5F_ACCUM_THRESHOLD 2048
#define H5F_ACCUM_MAX_SIZE (1024 * 1024) /* Max. accum. buf size (max. I/Os
will be 1/2 this size) */
@@ -34,7 +34,7 @@
/******************/
/* Local Typedefs */
-@@ -126,8 +127,9 @@ H5F__accum_read(H5F_shared_t *f_sh, H5FD_mem_t map_type,
haddr_t addr, size_t si
+@@ -125,8 +126,9 @@ H5F__accum_read(H5F_shared_t *f_sh, H5FD
HDassert(!accum->buf || (accum->alloc_size >= accum->size));
/* Current read adjoins or overlaps with metadata accumulator */
@@ -46,7 +46,7 @@
size_t amount_before; /* Amount to read before current
accumulator */
haddr_t new_addr; /* New address of the accumulator
buffer */
size_t new_size; /* New size of the accumulator buffer
*/
-@@ -439,7 +441,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5FD_mem_t map_type,
haddr_t addr, size_t s
+@@ -438,7 +440,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5F
/* Check if there is already metadata in the accumulator */
if (accum->size > 0) {
/* Check if the new metadata adjoins the beginning of the
current accumulator */
@@ -56,7 +56,7 @@
/* Check if we need to adjust accumulator size */
if (H5F__accum_adjust(accum, file, H5F_ACCUM_PREPEND,
size) < 0)
HGOTO_ERROR(H5E_IO, H5E_CANTRESIZE, FAIL, "can't
adjust metadata accumulator")
-@@ -464,7 +467,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5FD_mem_t map_type,
haddr_t addr, size_t s
+@@ -463,7 +466,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5F
accum->dirty_off = 0;
} /* end if */
/* Check if the new metadata adjoins the end of the current
accumulator */
@@ -66,7 +66,7 @@
/* Check if we need to adjust accumulator size */
if (H5F__accum_adjust(accum, file, H5F_ACCUM_APPEND,
size) < 0)
HGOTO_ERROR(H5E_IO, H5E_CANTRESIZE, FAIL, "can't
adjust metadata accumulator")
-@@ -485,7 +489,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5FD_mem_t map_type,
haddr_t addr, size_t s
+@@ -484,7 +488,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5F
accum->size += size;
} /* end if */
/* Check if the piece of metadata being written overlaps the
metadata accumulator */
@@ -76,7 +76,7 @@
size_t add_size; /* New size of the accumulator buffer */
/* Check if the new metadata is entirely within the
current accumulator */
-@@ -745,7 +750,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5FD_mem_t map_type,
haddr_t addr, size_t s
+@@ -744,7 +749,8 @@ H5F__accum_write(H5F_shared_t *f_sh, H5F
/* (Note that this could be improved by updating the accumulator
* with [some of] the information just read in. -QAK)
*/
@@ -86,7 +86,7 @@
/* Check for write starting before beginning of accumulator */
if (H5F_addr_le(addr, accum->loc)) {
/* Check for write ending within accumulator */
-@@ -868,6 +874,7 @@ H5F__accum_free(H5F_shared_t *f_sh, H5FD_mem_t
H5_ATTR_UNUSED type, haddr_t addr
+@@ -867,6 +873,7 @@ H5F__accum_free(H5F_shared_t *f_sh, H5FD
/* Adjust the metadata accumulator to remove the freed block, if it
overlaps */
if ((f_sh->feature_flags & H5FD_FEAT_ACCUMULATE_METADATA) &&
++++++ When-evicting-driver-info-block-NULL-the-corresponding-entry.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.095882923 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.099883067 +0200
@@ -16,11 +16,11 @@
---
src/H5Fsuper.c | 2 ++
1 file changed, 2 insertions(+)
-diff --git a/src/H5Fsuper.c b/src/H5Fsuper.c
-index 60b045ae29..1283790c57 100644
---- a/src/H5Fsuper.c
-+++ b/src/H5Fsuper.c
-@@ -1044,6 +1044,8 @@ done:
+Index: hdf5-1.12.3/src/H5Fsuper.c
+===================================================================
+--- hdf5-1.12.3.orig/src/H5Fsuper.c
++++ hdf5-1.12.3/src/H5Fsuper.c
+@@ -1045,6 +1045,8 @@ done:
/* Evict the driver info block from the cache */
if (sblock && H5AC_expunge_entry(f, H5AC_DRVRINFO,
sblock->driver_addr, H5AC__NO_FLAGS_SET) < 0)
HDONE_ERROR(H5E_FILE, H5E_CANTEXPUNGE, FAIL, "unable to
expunge driver info block")
++++++ hdf5-1.12.2.tar.bz2 -> hdf5-1.12.3.tar.bz2 ++++++
/work/SRC/openSUSE:Factory/hdf5/hdf5-1.12.2.tar.bz2
/work/SRC/openSUSE:Factory/.hdf5.new.1880/hdf5-1.12.3.tar.bz2 differ: char 11,
line 1
++++++ hdf5-1.8.11-abort_unknown_host_config.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.163885384 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.167885528 +0200
@@ -2,7 +2,7 @@
===================================================================
--- configure.orig
+++ configure
-@@ -4343,6 +4343,8 @@ done
+@@ -4962,6 +4962,8 @@ done
if test "X$host_config" != "Xnone"; then
CC_BASENAME="`echo $CC | cut -f1 -d' ' | xargs basename 2>/dev/null`"
. $host_config
@@ -15,7 +15,7 @@
===================================================================
--- configure.ac.orig
+++ configure.ac
-@@ -330,6 +330,8 @@ done
+@@ -346,6 +346,8 @@ done
if test "X$host_config" != "Xnone"; then
CC_BASENAME="`echo $CC | cut -f1 -d' ' | xargs basename 2>/dev/null`"
. $host_config
++++++ hdf5-LD_LIBRARY_PATH.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.179885963 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.183886108 +0200
@@ -1,8 +1,8 @@
-Index: hdf5-1.12.2/src/Makefile.in
+Index: hdf5-1.12.3/src/Makefile.in
===================================================================
---- hdf5-1.12.2.orig/src/Makefile.in
-+++ hdf5-1.12.2/src/Makefile.in
-@@ -1998,8 +1998,6 @@ help:
+--- hdf5-1.12.3.orig/src/Makefile.in
++++ hdf5-1.12.3/src/Makefile.in
+@@ -2831,8 +2831,6 @@ help:
# Remove the generated .c file if errors occur unless HDF5_Make_Ignore
# is set to ignore the error.
H5Tinit.c: H5detect$(EXEEXT)
@@ -11,7 +11,7 @@
$(RUNSERIAL) ./H5detect$(EXEEXT) $@ || \
(test $$HDF5_Make_Ignore && echo "*** Error ignored") || \
($(RM) $@ ; exit 1)
-@@ -2010,8 +2008,6 @@ H5Tinit.c: H5detect$(EXEEXT)
+@@ -2843,8 +2841,6 @@ H5Tinit.c: H5detect$(EXEEXT)
# Remove the generated .c file if errors occur unless HDF5_Make_Ignore
# is set to ignore the error.
H5lib_settings.c: H5make_libsettings$(EXEEXT) libhdf5.settings
++++++ hdf5-Remove-timestamps-from-binaries.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.195886542 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.199886687 +0200
@@ -10,11 +10,11 @@
---
src/H5detect.c | 15 ---------------
1 file changed, 15 deletions(-)
-Index: hdf5-1.12.2/src/H5detect.c
+Index: hdf5-1.12.3/src/H5detect.c
===================================================================
---- hdf5-1.12.2.orig/src/H5detect.c
-+++ hdf5-1.12.2/src/H5detect.c
-@@ -1224,22 +1224,6 @@ bit.\n";
+--- hdf5-1.12.3.orig/src/H5detect.c
++++ hdf5-1.12.3/src/H5detect.c
+@@ -1219,22 +1219,6 @@ bit.\n";
fprintf(rawoutstream, "/* Generated automatically by H5detect -- do not
edit */\n\n\n");
HDfputs(FileHeader, rawoutstream); /*the copyright notice--see top of
this file */
++++++ hdf5-wrappers.patch ++++++
--- /var/tmp/diff_new_pack.YnMgoE/_old 2024-05-15 21:27:39.219887411 +0200
+++ /var/tmp/diff_new_pack.YnMgoE/_new 2024-05-15 21:27:39.223887555 +0200
@@ -1,7 +1,8 @@
-diff -Naur hdf5-1.10.8.orig/bin/h5cc.in hdf5-1.10.8/bin/h5cc.in
---- hdf5-1.10.8.orig/bin/h5cc.in 2022-04-07 18:23:46.000000000 -0600
-+++ hdf5-1.10.8/bin/h5cc.in 2022-04-07 18:24:04.000000000 -0600
-@@ -89,10 +89,10 @@
+Index: hdf5-1.12.3/bin/h5cc.in
+===================================================================
+--- hdf5-1.12.3.orig/bin/h5cc.in
++++ hdf5-1.12.3/bin/h5cc.in
+@@ -88,10 +88,10 @@ CLINKERBASE="@CC@"
# paths and libraries from AM_LDFLAGS, LDFLAGS, AM_LIBS or LIBS carried in
# from the hdf5 build. The order of the flags is intended to give precedence
# to the user's flags.
@@ -15,7 +16,7 @@
CC="${HDF5_CC:-$CCBASE}"
CLINKER="${HDF5_CLINKER:-$CLINKERBASE}"
-@@ -105,7 +105,8 @@
+@@ -104,7 +104,8 @@ LIBS="${HDF5_LIBS:-$LIBSBASE}"
# available library is shared, it will be used by default. The user can
# override either default, although choosing an unavailable library will
result
# in link errors.
@@ -25,7 +26,7 @@
if test "${STATIC_AVAILABLE}" = "yes"; then
USE_SHARED_LIB="${HDF5_USE_SHLIB:-no}"
else
-@@ -385,7 +386,7 @@
+@@ -384,7 +385,7 @@ if test "x$do_link" = "xyes"; then
# paths and libraries from AM_LDFLAGS, LDFLAGS, AM_LIBS or LIBS carried in
# from the hdf5 build. The order of the flags is intended to give precedence
# to the user's flags.
@@ -34,10 +35,11 @@
status=$?
fi
-diff -Naur hdf5-1.10.8.orig/c++/src/h5c++.in hdf5-1.10.8/c++/src/h5c++.in
---- hdf5-1.10.8.orig/c++/src/h5c++.in 2022-04-07 18:23:45.000000000 -0600
-+++ hdf5-1.10.8/c++/src/h5c++.in 2022-04-07 18:24:04.000000000 -0600
-@@ -87,10 +87,10 @@
+Index: hdf5-1.12.3/c++/src/h5c++.in
+===================================================================
+--- hdf5-1.12.3.orig/c++/src/h5c++.in
++++ hdf5-1.12.3/c++/src/h5c++.in
+@@ -86,10 +86,10 @@ CXXLINKERBASE="@CXX@"
# paths and libraries from AM_LDFLAGS, LDFLAGS, AM_LIBS or LIBS carried in
# from the hdf5 build. The order of the flags is intended to give precedence
# to the user's flags.
@@ -51,7 +53,7 @@
CXX="${HDF5_CXX:-$CXXBASE}"
CXXLINKER="${HDF5_CXXLINKER:-$CXXLINKERBASE}"
-@@ -103,7 +103,8 @@
+@@ -102,7 +102,8 @@ LIBS="${HDF5_LIBS:-$LIBSBASE}"
# available library is shared, it will be used by default. The user can
# override either default, although choosing an unavailable library will
result
# in link errors.
@@ -61,7 +63,7 @@
if test "${STATIC_AVAILABLE}" = "yes"; then
USE_SHARED_LIB="${HDF5_USE_SHLIB:-no}"
else
-@@ -385,7 +386,7 @@
+@@ -384,7 +385,7 @@ if test "x$do_link" = "xyes"; then
# from the hdf5 build. The order of the flags is intended to give precedence
# to the user's flags.
@@ -70,10 +72,11 @@
status=$?
fi
-diff -Naur hdf5-1.10.8.orig/fortran/src/h5fc.in hdf5-1.10.8/fortran/src/h5fc.in
---- hdf5-1.10.8.orig/fortran/src/h5fc.in 2022-04-07 18:23:46.000000000
-0600
-+++ hdf5-1.10.8/fortran/src/h5fc.in 2022-04-07 18:24:04.000000000 -0600
-@@ -83,11 +83,11 @@
+Index: hdf5-1.12.3/fortran/src/h5fc.in
+===================================================================
+--- hdf5-1.12.3.orig/fortran/src/h5fc.in
++++ hdf5-1.12.3/fortran/src/h5fc.in
+@@ -83,11 +83,11 @@ FLINKERBASE="@FC@"
# libraries in $link_args, followed by any external library paths and
libraries
# from AM_LDFLAGS, LDFLAGS, AM_LIBS or LIBS carried in from the hdf5 build.
# The order of the flags is intended to give precedence to the user's flags.
@@ -88,7 +91,7 @@
FC="${HDF5_FC:-$FCBASE}"
FLINKER="${HDF5_FLINKER:-$FLINKERBASE}"
-@@ -99,7 +99,8 @@
+@@ -99,7 +99,8 @@ LIBS="${HDF5_LIBS:-$LIBSBASE}"
# available library is shared, it will be used by default. The user can
# override either default, although choosing an unavailable library will
result
# in link errors.
@@ -98,7 +101,7 @@
if test "${STATIC_AVAILABLE}" = "yes"; then
USE_SHARED_LIB="${HDF5_USE_SHLIB:-no}"
else
-@@ -363,7 +364,7 @@
+@@ -363,7 +364,7 @@ if test "x$do_link" = "xyes"; then
# libraries in $link_args, followed by any external library paths and
libraries
# from AM_LDFLAGS, LDFLAGS, AM_LIBS or LIBS carried in from the hdf5 build.
# The order of the flags is intended to give precedence to the user's flags.
