Your message dated Thu, 25 Jun 2026 14:41:53 +0000
with message-id <[email protected]>
and subject line Bug#1139600: fixed in gmtsar 6.7+ds-1
has caused the Debian Bug report #1139600,
regarding gmtsar: FTBFS against HDF5 2.1.0
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)
--
1139600: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1139600
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: gmtsar
Version: 6.6+ds-1
Severity: important
Tags: ftbfs patch
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Hi,
During a test rebuild of HDF5's reverse dependencies against HDF5 2.1.0
currently in experimental, gmtsar FTBFS because the related m4 macro
doesn't support this new major release.
The attached patch fixes this issue and support both HDF5 1.14.6 in
unstable and HDF5 2.1.0 in experimental.
Best,
_g.
- -- System Information:
Debian Release: 12.0
Architecture: amd64 (x86_64)
Kernel: Linux 6.1.0-44-amd64 (SMP w/12 CPU threads; PREEMPT)
Kernel taint flags: TAINT_OOT_MODULE, TAINT_UNSIGNED_MODULE
Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
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diff -Nru gmtsar-6.6+ds/debian/changelog gmtsar-6.6+ds/debian/changelog
--- gmtsar-6.6+ds/debian/changelog 2025-10-21 08:33:29.000000000 +0200
+++ gmtsar-6.6+ds/debian/changelog 2026-05-28 14:36:01.000000000 +0200
@@ -1,3 +1,10 @@
+gmtsar (6.6+ds-1.1) UNRELEASED; urgency=medium
+
+ * Non-maintainer upload.
+ * Fix FTBFS against HDF5 2.1.0
+
+ -- Gilles Filippini <[email protected]> Thu, 28 May 2026 14:36:01 +0200
+
gmtsar (6.6+ds-1) unstable; urgency=medium
[ Bas Couwenberg ]
diff -Nru gmtsar-6.6+ds/debian/patches/hdf5-2.1.0.patch
gmtsar-6.6+ds/debian/patches/hdf5-2.1.0.patch
--- gmtsar-6.6+ds/debian/patches/hdf5-2.1.0.patch 1970-01-01
01:00:00.000000000 +0100
+++ gmtsar-6.6+ds/debian/patches/hdf5-2.1.0.patch 2026-05-28
14:36:01.000000000 +0200
@@ -0,0 +1,54 @@
+Index: gmtsar-6.6+ds/ax_lib_hdf5.m4
+===================================================================
+--- gmtsar-6.6+ds.orig/ax_lib_hdf5.m4
++++ gmtsar-6.6+ds/ax_lib_hdf5.m4
+@@ -226,7 +226,14 @@ HDF5 support is being disabled (equivale
+ esac
+ done
+
+- HDF5_LIBS="$HDF5_LIBS -lhdf5"
++ HDF5_INFIX=
++ case "$HDF5_LIBS" in
++ -lhdf5_*)
++ HDF5_INFIX="${HDF5_LIBS#-lhdf5_}"
++ HDF5_INFIX="_${HDF5_INFIX%%_*}"
++ ;;
++ esac
++ HDF5_LIBS="$HDF5_LIBS -lhdf5$HDF5_INFIX"
+ AC_MSG_RESULT([yes (version $[HDF5_VERSION])])
+
+ dnl See if we can compile
+@@ -245,7 +252,7 @@ HDF5 support is being disabled (equivale
+ AC_MSG_WARN([Unable to compile HDF5 test program])
+ fi
+ dnl Look for HDF5's high level library
+- AC_CHECK_LIB([hdf5_hl], [H5TBread_table], [HDF5_LIBS="$HDF5_LIBS
-lhdf5_hl"], [], [])
++ AC_CHECK_LIB([hdf5${HDF5_INFIX}_hl], [H5TBread_table],
[HDF5_LIBS="$HDF5_LIBS -lhdf5${HDF5_INFIX}_hl"], [], [])
+
+ CC=$ax_lib_hdf5_save_CC
+ CPPFLAGS=$ax_lib_hdf5_save_CPPFLAGS
+@@ -281,9 +288,9 @@ HDF5 support is being disabled (equivale
+ for arg in $HDF5_LIBS
+ do
+ case "$arg" in #(
+- -lhdf5_hl) HDF5_FLIBS="$HDF5_FLIBS -lhdf5hl_fortran $arg"
++ -lhdf5${HDF5_INFIX}_hl) HDF5_FLIBS="$HDF5_FLIBS
-lhdf5${HDF5_INFIX}_hl_fortran $arg"
+ ;; #(
+- -lhdf5) HDF5_FLIBS="$HDF5_FLIBS -lhdf5_fortran $arg"
++ -lhdf5${HDF5_INFIX}) HDF5_FLIBS="$HDF5_FLIBS
-lhdf5${HDF5_INFIX}_fortran $arg"
+ ;; #(
+ *) HDF5_FLIBS="$HDF5_FLIBS $arg"
+ ;;
+Index: gmtsar-6.6+ds/configure.ac
+===================================================================
+--- gmtsar-6.6+ds.orig/configure.ac
++++ gmtsar-6.6+ds/configure.ac
+@@ -153,7 +153,7 @@ dnl ------------------------------------
+ dnl Set the HDF5 include and lib stuff
+ dnl ------------------------------------------------------------------
+ AX_LIB_HDF5()
+-HDF5_LIBS="$HDF5_LIBS -lhdf5_cpp" # Add the C++ library
++HDF5_LIBS="$HDF5_LIBS -lhdf5${HDF5_INFIX}_cpp" # Add the C++ library
+ AC_MSG_CHECKING(for HDF5 include)
+ AC_MSG_RESULT($HDF5_CPPFLAGS)
+ AC_MSG_CHECKING(for HDF5 libs)
diff -Nru gmtsar-6.6+ds/debian/patches/series
gmtsar-6.6+ds/debian/patches/series
--- gmtsar-6.6+ds/debian/patches/series 2025-10-21 08:33:29.000000000 +0200
+++ gmtsar-6.6+ds/debian/patches/series 2026-05-28 14:36:01.000000000 +0200
@@ -1,3 +1,4 @@
+hdf5-2.1.0.patch
0001-No-snaphu-and-epr-api.patch
0002-Fix-interpreter.patch
0003-Clean.patch
--- End Message ---
--- Begin Message ---
Source: gmtsar
Source-Version: 6.7+ds-1
Done: Antonio Valentino <[email protected]>
We believe that the bug you reported is fixed in the latest version of
gmtsar, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Antonio Valentino <[email protected]> (supplier of updated gmtsar
package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Thu, 25 Jun 2026 13:35:10 +0000
Source: gmtsar
Architecture: source
Version: 6.7+ds-1
Distribution: unstable
Urgency: medium
Maintainer: Debian GIS Project <[email protected]>
Changed-By: Antonio Valentino <[email protected]>
Closes: 1139600
Changes:
gmtsar (6.7+ds-1) unstable; urgency=medium
.
[ Gilles Filippini ]
* Improve patch for HDF5 2.1.0 (closes: #1139600)
.
[ Antonio Valentino ]
* New upstream release.
* debian/copyright:
- Update the list offiles to exclude in preparation to v6.7.
- Update dates in d/copyright.
* debian/patches:
- Refresh all patches.
- Rename hdf5-2.1.0.patch into 0004-hdf5-2.1.0.patch.
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