Christoph is right. Med-ficher fails on autopkgtests since the last NMU. Unit tests are also failing, but they are not causing FTBFSs due to explicit ignoring of its failures.
@Christoph, is there any chance to fix it in med-ficher? Regards Anton 2017-02-13 15:12 GMT+01:00 Christophe Trophime <[email protected]>: > > > > > Christophe TROPHIME > Research Engineer > > CNRS - LNCMI > 25, rue des Martyrs > BP 166 > 38042 GRENOBLE Cedex 9 > FRANCE > > Tel : +33 (0)4 76 88 90 02 > Fax : +33 (0) 4 76 88 10 01 > Office U 19 > M@il : [email protected] > > ----- Original Message ----- >> From: "Gilles Filippini" <[email protected]> >> To: "Christophe Trophime" <[email protected]> >> Cc: [email protected], [email protected] >> Sent: Monday, February 13, 2017 10:56:40 AM >> Subject: Re: big issue with latest hdf5 upgrade to 1.10 in stretch >> >> Hi, >> >> On 2017-02-13 10:49, Christophe Trophime wrote: >> > ----- Original Message ----- >> >> From: "Drew Parsons" <[email protected]> >> >> To: "Christophe Trophime" <[email protected]>, >> >> [email protected] >> >> Sent: Monday, February 13, 2017 10:34:23 AM >> >> Subject: Re: big issue with latest hdf5 upgrade to 1.10 in stretch >> >> >> >> On Mon, 2017-02-13 at 08:46 +0100, Christophe Trophime wrote: >> >> > Hi, >> >> > I would like to draw your attention to a problem that makes several >> >> > packages unusable. >> >> > >> >> > Since the upgrade of hdf5 to version 1.10 there is an issue with the >> >> > med-fichier library >> >> > which is used for several packages including gmsh, code_saturne, >> >> > code_aster. >> >> > >> >> > Actually med-fichier 3.xx do not support hdf5 format for version >> >> > greater than 1.8.xx. >> >> > So the upgrade of hdf5 breaks all the packages that rely on med- >> >> > fichier library. >> >> > This is a big issue especially as hdf5 1.10 will be in the next >> >> > stable debian version. >> >> >> >> >> >> What is the failure mode? med-fichier 3.0.6-10.1 has already been >> >> patched to build against hdf5 1.10. >> >> >> > >> > Typical failure is the following from Salome Forum: >> > Hello all, >> > >> > I'm trying to set up a CFD case with Salome, export the mesh in a MED >> > file and then process it with Code Saturne. CS doesn't read the MED >> > file and gives the error in the preprocessing stage: >> > >> > _MEDdatasetRd.c [139] : Erreur à la lecture du dataset >> > _MEDdatasetRd.c [139] : COO >> > HDF5-DIAG: Error detected in HDF5 (1.10.0-patch1) thread 0: >> > #000: ../../../src/H5Dio.c line 170 in H5Dread(): can't read data >> > major: Dataset >> > minor: Read failed >> > #001: ../../../src/H5Dio.c line 418 in H5D__read(): unable to set up >> > type info >> > major: Dataset >> > minor: Unable to initialize object >> > #002: ../../../src/H5Dio.c line 953 in H5D__typeinfo_init(): not a >> > datatype >> > major: Invalid arguments to routine >> > minor: Inappropriate type >> > _MEDdatasetRd.c [142] : _dataset = 2 >> > _MEDdatasetRd.c [143] : _i = 0 >> > _MEDdatasetRd.c [144] : (*filter).memspace[_i] = 2 >> > _MEDdatasetRd.c [145] : (*filter).diskspace[_i] = 3 >> > _MEDmeshAdvancedRd30.c [462] : Erreur à la lecture du dataset >> > _MEDmeshAdvancedRd30.c [462] : >> > _MEDmeshAdvancedRd30.c [463] : meshname = "Mesh_water" >> > _MEDmeshAdvancedRd30.c [463] : numit = -1 >> > _MEDmeshAdvancedRd30.c [463] : numdt = -1 >> > _MEDmeshAdvancedRd30.c [463] : _datagroupname2 = "NOE" >> > _MEDmeshAdvancedRd30.c [464] : _datagroupname3 = "" >> > _MEDmeshAdvancedRd30.c [464] : _profilename = "MED_NO_PROFILE_INTERNAL" >> > >> > The problem can be because I installed Salome from the >> > SALOME-7.6.0-DB07.tgz archive whilst Code Saturne is a Debian package >> > and is installed via the Debian package system which is much easier >> > than installing the original package. So the med and hdf5 libraries of >> > CS come from the Debian repositories. I can't use newer versions of >> > Salome (7.7.1 or 7.8.0) as they produce MED3.1 files but my CS reads >> > only MED3.0 files. >> > >> > The details of my machine: >> > >> > Debian stretch (testing) on AMD64 >> > >> > Salome 7.6.0 from SALOME-7.6.0-DB07.tgz >> > >> > Code Saturne 4.3 Debian package >> > >> > libmed 3.0.6-10.1 Debian package >> > >> > hdf5 1.10.0 Debian package >> > >> > Not knowing if this problem comes from how I create the mesh I tried >> > to run one of the test cases from the Code Saturne tutorials but ran >> > into other problems. >> > >> > If you need any other information pleas let me know. Any hint on how >> > to go further is very welcome. >> > >> > Best regards >> > >> > Elektrix >> > """ >> > >> > Basically you can generate file but can no longer read it... >> >> Something like a test case as simple as possible would help. >> Thanks in advance, > > Take any med file from saturne, aster and salome and you will run into the > problem... > It's maybe more a break of compatibility from med-fichier with hdf5 1.8.xx > > >> >> _g. >> >> >
