python-sofa
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Importing Python-SOFA in parallel to h5py fails on Windows.
When importing SOFA and h5py Python throws: ` UserWarning: h5py is running against HDF5 1.12.1 when it was built against 1.12.2, this may cause problems _warn(("h5py is running against HDF5 {0} when it was built against {1}, " Warning! HDF5 library version mismatched error The HDF5 header files used to compile this application do not match the version used by the HDF5 library to which this application is linked. Data corruption or segmentation faults may occur if the application continues. This can happen when an application was compiled by one version of HDF5 but linked with a different version of static or shared HDF5 library. You should recompile the application or check your shared library related settings such as 'LD_LIBRARY_PATH'. You can, at your own risk, disable this warning by setting the environment variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'. Setting it to 2 or higher will suppress the warning messages totally. Headers are 1.12.2, library is 1.12.1 SUMMARY OF THE HDF5 CONFIGURATION =================================
General Information:
HDF5 Version: 1.12.1
Configured on: 2022-03-04
Configured by: Ninja
Host system: Windows-10.0.17763
Uname information: Windows
Byte sex: little-endian
Installation point: D:/bld/hdf5_split_1646412547396/_h_env/Library
Compiling Options:
Build Mode: RELEASE
Debugging Symbols: OFF
Asserts: OFF
Profiling: OFF
Optimization Level: OFF
Linking Options:
Libraries:
Statically Linked Executables: OFF LDFLAGS: /machine:x64 H5_LDFLAGS: AM_LDFLAGS: Extra libraries: D:/bld/hdf5_split_1646412547396/_h_env/Library/lib/libcurl.lib;D:/bld/hdf5_split_1646412547396/_h_env/Library/lib/libssl.lib;D:/bld/hdf5_split_1646412547396/_h_env/Library/lib/libcrypto.lib Archiver: C:/Program Files (x86)/Microsoft Visual Studio/2019/Enterprise/VC/Tools/MSVC/14.16.27023/bin/HostX64/x64/lib.exe Ranlib: :
Languages:
C: YES
C Compiler: C:/Program Files (x86)/Microsoft Visual Studio/2019/Enterprise/VC/Tools/MSVC/14.16.27023/bin/HostX64/x64/cl.exe 19.16.27045.0
CPPFLAGS:
H5_CPPFLAGS:
AM_CPPFLAGS:
CFLAGS: /DWIN32 /D_WINDOWS
H5_CFLAGS: /W3;/wd4100;/wd4706;/wd4127
AM_CFLAGS:
Shared C Library: YES
Static C Library: YES
Fortran: OFF
Fortran Compiler:
Fortran Flags:
H5 Fortran Flags:
AM Fortran Flags:
Shared Fortran Library: YES
Static Fortran Library: YES
C++: ON
C++ Compiler: C:/Program Files (x86)/Microsoft Visual Studio/2019/Enterprise/VC/Tools/MSVC/14.16.27023/bin/HostX64/x64/cl.exe 19.16.27045.0
C++ Flags:
H5 C++ Flags: /W3;/wd4100;/wd4706;/wd4127
AM C++ Flags:
Shared C++ Library: YES
Static C++ Library: YES
JAVA: OFF
JAVA Compiler:
Features:
Parallel HDF5: OFF
Parallel Filtered Dataset Writes: Large Parallel I/O: High-level library: ON Build HDF5 Tests: ON Build HDF5 Tools: ON Threadsafety: ON (recursive RW locks: ) Default API mapping: v112 With deprecated public symbols: ON I/O filters (external): DEFLATE MPE: Direct VFD: Mirror VFD: (Read-Only) S3 VFD: 1 (Read-Only) HDFS VFD: dmalloc: Packages w/ extra debug output: API Tracing: OFF Using memory checker: OFF Memory allocation sanity checks: OFF Function Stack Tracing: OFF Use file locking: best-effort Strict File Format Checks: OFF Optimization Instrumentation: Bye...`
Discovered on Windows 10 and not reproducable on Ubuntu.
Steps to reproduce:
- create virtualenviroment
- install python-sofa and h5py via pip
Run in python:
import sofa
import h5py
List of installed packages: Package Version
cftime 1.6.2 DateTime 4.7 h5py 3.7.0 netCDF4 1.6.1 numpy 1.23.3 pip 22.2.2 python-sofa 0.2.0 pytz 2022.2.1 scipy 1.9.1 setuptools 65.3.0 zope.interface 5.4.0