Your message dated Sun, 21 Jun 2026 11:33:45 +0000
with message-id <[email protected]>
and subject line Bug#1139600: fixed in gmtsar 6.6+ds-2
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
-----BEGIN PGP SIGNATURE-----
iQEzBAEBCgAdFiEEoJObzArDE05WtIyR7+hsbH/+z4MFAmopEsUACgkQ7+hsbH/+
z4PQhggAhb8A+rjFmNBcWoNWhrpoo/WnclbhK3x0fnfXwnNfUnMJrHTWhG6yHYXE
EZbJV2rwrZdL8mbkwF01MSINdJqc5L6Z0zwodVVlk75CESeGxPHFIT11Q+/mwk8E
b50+y/T7MzjxDMfSldkALeBQkY/GfrsWzG254ADowDSnK1b6byKz16M+ILd+rSBO
9iHQ63S8T6+LgEYNKCtH9iznkIhOj3HBJ2R4wFvrSSNzUZeaVwpCkcUtrYGKvUKv
qRZe4Bm80ljVo1NOmS1HKyemWeZVQrPvcZzxlYF4E93LD/1waF0SRkZi93uooRzP
LL0nMdQd1W+K+emyhWin3Sp2eELWoA==
=tKbq
-----END PGP SIGNATURE-----
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: 6.6+ds-2
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: Sun, 21 Jun 2026 10:48:16 +0000
Source: gmtsar
Architecture: source
Version: 6.6+ds-2
Distribution: unstable
Urgency: medium
Maintainer: Debian GIS Project <[email protected]>
Changed-By: Antonio Valentino <[email protected]>
Closes: 1139600
Changes:
gmtsar (6.6+ds-2) unstable; urgency=medium
.
[ Bas Couwenberg ]
* Use test-build-validate-cleanup instead of test-build-twice.
* Drop Priority: optional, default since dpkg 1.22.13.
* Bump Standards-Version to 4.7.4, changes: priority.
* Don't remove symlink in clean target.
.
[ Gilles Filippini ]
* Fix FTBFS against HDF5 2.1.0.
(closes: #1139600)
Checksums-Sha1:
1f9d1499376da495536b04e61ff5339a78518cc0 3414 gmtsar_6.6+ds-2.dsc
d37ac97ea3393f8acf143d9c6d9693f81c3a8562 22944 gmtsar_6.6+ds-2.debian.tar.xz
aaca19de81dfaa2cc1f9b9b308e97152a59b4482 12341 gmtsar_6.6+ds-2_amd64.buildinfo
Checksums-Sha256:
c9f3b2162aeb9810e3df746715456e755c3548ef513945014863d907e0ed8caf 3414
gmtsar_6.6+ds-2.dsc
695ad89a179c9ed2f930d110f50748b0e207c479c2197fd20073673fbca35842 22944
gmtsar_6.6+ds-2.debian.tar.xz
ab7aa001c9c026af91794f4ad4b32b23e397c727a8fbe2e0a6175788d1046a10 12341
gmtsar_6.6+ds-2_amd64.buildinfo
Files:
71790f3e0894c3e23195803cb5d61ce1 3414 science optional gmtsar_6.6+ds-2.dsc
d5ef76002048a6add67c6f884081ed7c 22944 science optional
gmtsar_6.6+ds-2.debian.tar.xz
0fb19c3aae507d8b291bad575f057038 12341 science optional
gmtsar_6.6+ds-2_amd64.buildinfo
-----BEGIN PGP SIGNATURE-----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=6OCm
-----END PGP SIGNATURE-----
pgpEQY5tiq0XN.pgp
Description: PGP signature
--- End Message ---
