Source: h5py Version: 2.8.0-1 Severity: serious Tags: patch Justification: FTBFS
-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Hi, h5py FTBFS against hdf5 1.10.4 now transitioning into unstable: ====================================================================== ERROR: test_force_swmr_mode_on_raises (h5py.tests.hl.test_dataset_swmr.TestDatasetSwmrRead) Verify when reading a file cannot be forcibly switched to swmr mode. - ---------------------------------------------------------------------- Traceback (most recent call last): File "h5py/tests/hl/test_dataset_swmr.py", line 75, in test_force_swmr_mode_on_raises self.f.swmr_mode = True File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper File "h5py/_hl/files.py", line 268, in swmr_mode self.id.start_swmr_write() File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper File "h5py/h5f.pyx", line 510, in h5py.h5f.FileID.start_swmr_write TypeError: Unable to convert file format (no write intent on file) ====================================================================== ERROR: test_exc (h5py.tests.old.test_group.TestLen) len() on closed group gives ValueError - ---------------------------------------------------------------------- Traceback (most recent call last): File "h5py/tests/old/test_group.py", line 302, in test_exc len(self.f) File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper File "h5py/_hl/group.py", line 318, in __len__ return self.id.get_num_objs() File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper File "h5py/h5g.pyx", line 331, in h5py.h5g.GroupID.get_num_objs TypeError: Not a location id (invalid object ID) This is due to some changes introduced in hdf5 1.10.3. Please find attached a patch backported from upstream repository. Thanks, _g. - -- System Information: Debian Release: buster/sid Architecture: amd64 (x86_64) Foreign Architectures: i386 Kernel: Linux 4.14.0-3-amd64 (SMP w/4 CPU cores) Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8), LANGUAGE=fr_FR.UTF-8 (charmap=UTF-8) Shell: /bin/sh linked to /bin/dash Init: systemd (via /run/systemd/system) LSM: AppArmor: enabled -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEEoJObzArDE05WtIyR7+hsbH/+z4MFAlv0eYsACgkQ7+hsbH/+ z4M1CQf/eNEpNVS++J7s9+9ydFCjv2PDDc7JOooChlJYhIfMFKe/aN6yUEWb6+qc 7bbk5Xx6oR+KU2OptDa9liUzSkvczzPB0KhGVpBOUSYKea3+g2ydCMf6m8KRJSPl kecdlpOS+sOzzt9dxYqhzXIYk8qBduSu8eAjMx1iMYwr4HWELTm4zQ2YQXf1CGI3 bWzVI8K6iqOIQgfjpi+Jari3SWKtQ4vEHBAU50epHJsfnOibF4Fdlc5eqk76m6x7 43+LUAYJ4UAvbtXySh2g7lf/qEEcG4g3U+q0ARyJB6RwO1jXhRokoDPVYmVuiZox 7Oi9wDkmHDzhqmhg+QabZRXQZbrI4A== =JQqV -----END PGP SIGNATURE-----
diff -Nru h5py-2.8.0/debian/changelog h5py-2.8.0/debian/changelog --- h5py-2.8.0/debian/changelog 2018-08-04 18:54:06.000000000 +0200 +++ h5py-2.8.0/debian/changelog 2018-10-14 22:52:25.000000000 +0200 @@ -1,3 +1,10 @@ +h5py (2.8.0-1.1) UNRELEASED; urgency=medium + + * Non-maintainer upload. + * New patch hdf5-1.10.3-support.patch: fix FTBFS against HDF5 1.10.3 + + -- Gilles Filippini <p...@debian.org> Sun, 14 Oct 2018 22:52:25 +0200 + h5py (2.8.0-1) unstable; urgency=medium * Team upload. diff -Nru h5py-2.8.0/debian/patches/hdf5-1.10.3-support.patch h5py-2.8.0/debian/patches/hdf5-1.10.3-support.patch --- h5py-2.8.0/debian/patches/hdf5-1.10.3-support.patch 1970-01-01 01:00:00.000000000 +0100 +++ h5py-2.8.0/debian/patches/hdf5-1.10.3-support.patch 2018-10-14 22:52:25.000000000 +0200 @@ -0,0 +1,32 @@ +Description: backport upstream patch to fix FTBFS against HDF5 1.10.3 + +From 6653c65e8c8d024bbcf50315a1c5201487632322 Mon Sep 17 00:00:00 2001 +From: Thomas A Caswell <tcasw...@gmail.com> +Date: Thu, 11 Oct 2018 23:39:29 -0400 +Subject: [PATCH] FIX: adjust mapping of hdf5 error codes -> python error codes + +This is to account for changes to hdf5 between 1.10.2 and 1.10.3. + +Closes #1088 +--- + h5py/_errors.pyx | 7 +++++++ + 1 file changed, 7 insertions(+) + +diff --git a/h5py/_errors.pyx b/h5py/_errors.pyx +index 76801f4f..23849f49 100644 +--- a/h5py/_errors.pyx ++++ b/h5py/_errors.pyx +@@ -73,6 +73,13 @@ _exact_table = { + (H5E_SYM, H5E_CANTINIT): ValueError, # Object already exists/1.8 + (H5E_ARGS, H5E_BADTYPE): ValueError, # Invalid location in file + (H5E_REFERENCE, H5E_CANTINIT): ValueError, # Dereferencing invalid ref ++ ++ # needed for 1.10.3 to maintain compatibility with 1.10.{0,1,2} ++ ++ # due to changes to H5Gdeprec.c:H5Gget_num_objs ++ (H5E_SYM, H5E_BADTYPE): ValueError, # Invalid location in file ++ # due to changes to H5F.c:H5Fstart_swmr_write ++ (H5E_FILE, H5E_CANTCONVERT): ValueError, # Invalid file format + } + + cdef struct err_data_t: diff -Nru h5py-2.8.0/debian/patches/series h5py-2.8.0/debian/patches/series --- h5py-2.8.0/debian/patches/series 2018-08-04 18:00:39.000000000 +0200 +++ h5py-2.8.0/debian/patches/series 2018-10-14 22:51:48.000000000 +0200 @@ -1,2 +1,3 @@ No-rpath.patch No-intersphinx.patch +hdf5-1.10.3-support.patch