WebApr 8, 2015 · has some logic to detect possible infinite loop in sym-link/group structure for which it sometimes actually outputs a message along the lines of " infinite loop detected while closing file 'foo.h5' . . .". i sometimes wind up using H5Fget_obj_count just prior to H5Fclose to try to debug this when it (occasionally) has happend for me. WebDec 15, 2015 · h5py + mpi: HDF5: infinite loop closing library / Unable to flush file's cached information (Mpi_err_arg: invalid argument of some other kind) ... As far as I understand two ranks succeded in closing and two of them detected this "infinite loop". So I tried to call myh5.flush() before myh5.close() and this caused: mpiexec -n 4 python3 …
H5 Surface Source Read and MPI - User Support - OpenMC
WebOct 21, 2024 · First, to rule out Snakemake as an issue, did you try to simply load the pre-trained model in a Python shell? For example, does this throw the same error? $ python -c "from stardist.models import StarDist2D; StarDist2D.from_pretrained('2D_versatile_fluo')" If that's the case, then I'd try to use a different/newer version of the HDF5 library h5py . WebNOTE: The netcdf-hdf mailing list is no longer active. The list archives are made available for historical reasons. To: netcdf-hdf@xxxxxxxxxxxxxxxx; Subject: [netcdf-hdf] Fortran parallel IO in netcdf-beta2/hdf5; From: "Edward (Ted) Mansell" robin scher artnews
BGW 3.0.1 Epsilon Complex issue with HDF5 during file closing
WebThe below example is sufficient to reproduce the problem with h5py-2.6.0. The difference between triggering the problem and not (apart from the aforementioned libver='latest') is the number of attributes: 544 will trigger, 543 will not. WebI'm trying to build parallel enabled netcdf 4.1.3 on Fedora 16 with hdf5 1.8.7 and with both mpich2 1.4.1p1 and openmpi 1.5.4. In running make check with the openmpi build I get: WebMar 7, 2016 · Roy, thanks for your response. I tried adding the call to nf90_redef after the open, as you suggest, and then re-write the attributes, but I still get the same error ... robin scher attorney