WebYes, serial HDF5 and Parallel HDF5 (PHDF5) are part of the same HDF5 source code. Parallel HDF5 is a configure option that you can specify to build HDF5 with: ./configure --enable-parallel. HDF5 "knows" certain parallel compilers and will automatically enable Parallel HDF5 if one of those compilers is specified in the CC environment variable. WebA configure option is available to disable file locking: -disable-libtool-lock. You can also set the HDF5_USE_FILE_LOCKING environment variable to FALSE to disable file locking. This was added to HDF5-1.10.6, and is described in the release notes: fcntl (2)-based file locking incorrectly passed the lock argument struct.

Read10X_h5 errors? · Issue #5055 · satijalab/seurat · GitHub

WebMar 17, 2024 · If you are on a system that doesn’t have file locking enabled (e.g., many Lustre installations), you will probably have file locking problems with HDF5 1.10,0 (which is also really, really old). The first step would be to get the source for HDF5 1.10.7 and try that to see if your problems go away. In 1.10.7 you can even build with file ... WebAug 1, 2024 · You just need to set the value to FALSE for the environment variable HDF5_USE_FILE_LOCKING. Examples are as follows: In Linux or MacOS via Terminal: … ky medicaid home health nursing

HDF5 files in Python - GeeksforGeeks

WebRecursive locks are defined to be the following type ( H5private.h ): typedef struct H5_mutex_struct { pthread_t owner_thread; /* current lock owner */ pthread_mutex_t … WebApr 3, 2024 · HDF ® supports n-dimensional datasets and each element in the dataset may itself be a complex object. Easy Sharing HDF ® is portable, with no vendor lock-in, and … WebNov 11, 2024 · HDF5 is indeed 1.12.0. Installation was not a problem, but I'm quite sure that I did not run 'make test'. The configure flags are '-enable-parallel --enable-fortran --enable-build-mode=production', -fPIC was also used. It seems that the problem is related to NFS. This has been reported before. ky medicaid income limits 2022