Package: release.debian.org
Severity: normal
User: release.debian....@packages.debian.org
Usertags: freeze-exception
We (the Debian Octave Group) have been discussing the issue described
below during the past days and are requiring the pre-approval for
octave/3.6.2-5, which would be uploaded to unstable to fix the issue with
the patch attached below.
The issue is the following: the liboctave-dev package depends on the
libhdf5-dev package which, on its turn, depends on the serial version of
the HDF5 library package (libhdf5-7). This version of the HDF5 library
conflicts with the parallel versions (libhdf5-openmpi-7 and
libhdf5-mpich2-7). That means that liboctave-dev is not coinstallable
with the parallel versions of the HDF5 library, what prevents our users
of installing libcotave-dev together with the following packages (at
least):
$ apt-cache rdepends libhdf5-openmpi-7
libhdf5-openmpi-7
Reverse Depends:
python-gmsh
libjava-gmsh2
libgmsh2
gmsh
getdp
libfeel++1
feel++-apps
code-aster-mpi-engine
code-aster-engine-dbg
code-aster-engine
libxdmf2
libslepc3.2
libsiloh5-0
libpetsc3.2
meep-openmpi
libmeep-openmpi6
libmedimport0
libmedc1
libmed1
libmed-tools
libhdf5-openmpi-dev
libhdf5-openmpi-7-dbg
code-saturne-bin
libcdi0
cdo
libadios-dev
Note that this is a serious regression from squeeze.
We have a long history of complaints from our users about this issue (for
a recent case, see [1]). For instance, packages like gmsh and
libhdf5-openmpi-dev, quite well placed in the Debian Popularity Contest
BTW (542 and 277 installations), cannot be coinstalled with
liboctave-dev.
Furthermore, earlier this year, we (the Debian Octave Groupe) had to
require the removal of the octave-msh [2] and octave-bim [3] packages,
because they could not be built from source, since they build-depend on
libhdf5-openmpi-7. If the issue reported here is fixed, then we will be
able to introduced those packages in Debian again.
The (small) patch to fix the problem, attached below, has been prepared
by Sébastien Villemot and we have discussed about it in our mailing list
[4]. This patch changes a single line of the upstream file
src/mkoctfile.in and adds two alternative dependencies to liboctave-dev
in debian/control.
Thanks,
Rafael Laboissière
[1]
http://lists.alioth.debian.org/pipermail/pkg-octave-devel/2012-August/009582.html
[2] http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=665858
[3] http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=665860
[4]
http://lists.alioth.debian.org/pipermail/pkg-octave-devel/2012-August/009585.html
commit 9161c3f0c23c6d5527da0f2bd8343595ec70d064
Author: Sébastien Villemot <sebastien.ville...@ens.fr>
Date: Fri Aug 10 12:01:32 2012 +0200
Make liboctave-dev coinstallable with all HDF5 variants
diff --git a/debian/control b/debian/control
index ed43e0d..2aaed93 100644
--- a/debian/control
+++ b/debian/control
@@ -126,7 +126,8 @@ Package: liboctave-dev
Architecture: any
Depends: liboctave1 (= ${binary:Version}), octave (= ${binary:Version}), ${misc:Depends},
libreadline-dev | libreadline6-dev | libreadline5-dev, libncurses5-dev,
- libhdf5-dev (>= 1.8.8), libgl1-mesa-dev | libgl-dev,
+ libhdf5-dev (>= 1.8.8) | libhdf5-openmpi-dev (>= 1.8.8) | libhdf5-mpich2-dev (>= 1.8.8),
+ libgl1-mesa-dev | libgl-dev,
libblas-dev (>=1.2-7), liblapack-dev (>=3.2.1-7), libfftw3-dev, gfortran, gcc, g++
Conflicts: octave3.2-headers
Replaces: octave3.2-headers
diff --git a/debian/patches/mkoctfile-openmpi.diff b/debian/patches/mkoctfile-openmpi.diff
new file mode 100644
index 0000000..620ec01
--- /dev/null
+++ b/debian/patches/mkoctfile-openmpi.diff
@@ -0,0 +1,11 @@
+--- a/src/mkoctfile.in
++++ b/src/mkoctfile.in
+@@ -77,7 +77,7 @@
+ : ${CXXFLAGS=%OCTAVE_CONF_CXXFLAGS%}
+ : ${CXXPICFLAG=%OCTAVE_CONF_CXXPICFLAG%}
+ : ${XTRA_CFLAGS=%OCTAVE_CONF_XTRA_CFLAGS%}
+-: ${XTRA_CXXFLAGS=%OCTAVE_CONF_XTRA_CXXFLAGS%}
++: ${XTRA_CXXFLAGS=-I/usr/include/mpi %OCTAVE_CONF_XTRA_CXXFLAGS%}
+
+ : ${DEPEND_FLAGS=%OCTAVE_CONF_DEPEND_FLAGS%}
+ : ${DEPEND_EXTRA_SED_PATTERN=%OCTAVE_CONF_DEPEND_EXTRA_SED_PATTERN%}
diff --git a/debian/patches/series b/debian/patches/series
index 0799947..0bbc6a1 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -7,3 +7,4 @@ add_info_dir_categories
correct_typos
use_system_gl2ps
drop_version_from_mkoctfile_function_call
+mkoctfile-openmpi.diff
