Bug#944192: python3-h5py: 'import h5py' produces Open MPI message to stderr

Jameson Graef Rollins jrollins at finestructure.net
Tue Nov 5 16:22:12 GMT 2019


Package: python3-h5py
Version: 2.10.0-2
Severity: normal

A recent update started causing the h5py module to print a warning
message to stderr on import:

servo:~ 0$ python3 -c 'import h5py'
--------------------------------------------------------------------------
[[8338,1],0]: A high-performance Open MPI point-to-point messaging module
was unable to find any relevant network interfaces:

Module: OpenFabrics (openib)
  Host: servo

Another transport will be used instead, although this may result in
lower performance.

NOTE: You can disable this warning by setting the MCA parameter
btl_base_warn_component_unused to 0.
--------------------------------------------------------------------------
servo:~ 0$

Obviously this is annoying and undesired.  I'm guessing it is maybe
actually coming from one of the underlying hdf5 libraries?  In any
event, it should somehow be supressed.

Thanks for maintaining!

jamie.


-- System Information:
Debian Release: bullseye/sid
  APT prefers testing
  APT policy: (600, 'testing'), (500, 'stable'), (200, 'unstable'), (101, 'experimental')
Architecture: amd64 (x86_64)

Kernel: Linux 5.2.0-3-amd64 (SMP w/8 CPU cores)
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8), LANGUAGE=en_US.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled

Versions of packages python3-h5py depends on:
ii  libc6                               2.29-2
ii  libhdf5-openmpi-103                 1.10.4+repack-10
ii  python3                             3.7.5-1
ii  python3-mpi4py                      3.0.2-13
ii  python3-numpy [python3-numpy-abi9]  1:1.16.5-1
ii  python3-six                         1.12.0-2

python3-h5py recommends no packages.

Versions of packages python3-h5py suggests:
pn  python-h5py-doc  <none>

-- no debconf information



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