Hi,
When building netcdf4-python-1.6.5-foss-2023b.eb the test step fails
with the following error:
PYTHONPATH=/localscratch/tmp/build/tmp.17503880.0/eb-ple0puns/tmpaol7kfjv/lib/python3.11/site-packages:$PYTHONPATH
&& cd test && mpirun -n 1
/sw/sc/easybuild/software/Python/3.11.5-GCCcore-13.2.0/bin/python
run_all.py " exited with exit code 1 and output:
not running tst_diskless.py ...
not running tst_compression_zstd.py ...
not running tst_compression_bzip2.py ...
not running tst_compression_blosc.py ...
not running tst_dap.py ...
not running tst_multiple_open_close.py ...
netcdf4-python version: 1.6.5
HDF5 lib version: 1.14.3
netcdf lib version: 4.9.2
numpy version 1.26.2
cython version 3.0.4
.............compressed lossy with shuffle and standard quantization =
187745 max err = 0.0002441335416845103
.compressed lossy with shuffle and alternate quantization = 155383 max err
= 0.00048827613806445846
compressed lossy with shuffle and alternate quantization = 163046 max err =
0.0002441375949907565
E....................................................................................
======================================================================
ERROR: runTest (tst_compression_szip.CompressionTestCase.runTest)
----------------------------------------------------------------------
Traceback (most recent call last):
File
"/trinity/shared/easybuild/arch/x86_64/amd/zen3/build/netcdf4python/1.6.5/foss-2023b/netcdf4python/netCDF4-1.6.5/test/tst_compression_szip.py",
line 36, in runTest
assert_almost_equal(datarr,f.variables['data_szip'][:], 6)
~~~~~~~~~~~~~~~~~~~~~~~~^^^
File "src/netCDF4/_netCDF4.pyx", line 4972, in
netCDF4._netCDF4.Variable.__getitem__
File "src/netCDF4/_netCDF4.pyx", line 5930, in
netCDF4._netCDF4.Variable._get
File "src/netCDF4/_netCDF4.pyx", line 2034, in
netCDF4._netCDF4._ensure_nc_success
RuntimeError: NetCDF: HDF error
----------------------------------------------------------------------
Ran 99 tests in 8.951s
FAILED (errors=1)
Does anyone know what the problem might be? A possible reason for the
error seems to be that the HDF5 file is corrupt, but can that really be
the case here?
Cheers,
Loris
--
Dr. Loris Bennett (Herr/Mr)
FUB-IT (ex-ZEDAT), Freie Universität Berlin
