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Dear all, I'm a developer of a fortran code which uses netcdf for I/O In one of my runs I created a file with some huge array of characters. The header of the file is the following: netcdf ndb.BS_COMPRESS0 { dimensions: BS_K_linearized1 = 2025000000 ; BS_K_linearized2 = 781887360 ; variables: char BSE_RESONANT_COMPRESSED1_DONE(BS_K_linearized1) ; char BSE_RESONANT_COMPRESSED2_DONE(BS_K_linearized1) ; char BSE_RESONANT_COMPRESSED3_DONE(BS_K_linearized2) ; }The variable is declared as nf90_char which, according to the documentation should be 1 byte per element. Thus I would expect the total size of the file to be 1 byte*(2*2025000000+781887360) ~ 4.5 GB Instead the file size is 16059445323 bytes ~ 14.96 GB, i.e. 10.46 GB more and a factor 3.33 bigger
This happens consistently if I consider the file netcdf ndb { dimensions: complex = 2 ; BS_K_linearized1 = 2025000000 ; BS_K_linearized2 = 781887360 ; variables: float BSE_RESONANT_LINEARIZED1(BS_K_linearized1, complex) ; char BSE_RESONANT_LINEARIZED1_DONE(BS_K_linearized1) ; float BSE_RESONANT_LINEARIZED2(BS_K_linearized1, complex) ; char BSE_RESONANT_LINEARIZED2_DONE(BS_K_linearized1) ; float BSE_RESONANT_LINEARIZED3(BS_K_linearized2, complex) ; char BSE_RESONANT_LINEARIZED3_DONE(BS_K_linearized2) ; }The float component should weight ~36 GB while the char component should be identical to before, i.e. 4.5 GB for a total of 40.5 GB The file is instead ~ 50.96 GB, i.e. again a factor 10.46 GB bigger than expected.
*Why ?** *** My character variables are something like "tnnnntnnnntnnnnnnnntnnnnnttnnnnnnnnnnnnnnnnt..."but the file size is already like that just after the file creation, i.e. before filling it.
Few info about the library, compiled linking to HDF5 (hdf5-1.8.18), with parallel IO support:
Name: netcdf Description: NetCDF Client Library for C URL: http://www.unidata.ucar.edu/netcdf Version: 4.4.1.1Libs: -L${libdir} -lnetcdf -ldl -lm /nfs/data/bin/Yambo/gcc-8.1.0/openmpi-3.1.0/yambo_ext_libs/gfortran/mpifort/v4/parallel/lib/libhdf5hl_fortran.a /nfs/data/bin/Yambo/gcc-8.1.0/openmpi-3.1.0/yambo_ext_libs/gfortran/mpifort/v4/parallel/lib/libhdf5_fortran.a /nfs/data/bin/Yambo/gcc-8.1.0/openmpi-3.1.0/yambo_ext_libs/gfortran/mpifort/v4/parallel/lib/libhdf5_hl.a /nfs/data/bin/Yambo/gcc-8.1.0/openmpi-3.1.0/yambo_ext_libs/gfortran/mpifort/v4/parallel/lib/libhdf5.a -lz -lm -ldl -lcurl
Cflags: -I${includedir} Name: netcdf-fortran Description: NetCDF Client Library for Fortran URL: http://www.unidata.ucar.edu/netcdf Version: 4.4.4 Requires.private: netcdf > 4.1.1 Libs: -L${libdir} -lnetcdff Libs.private: -L${libdir} -lnetcdff -lnetcdf Cflags: -I${includedir} Best, D. -- Davide Sangalli, PhDCNR-ISM, Division of Ultrafast Processes in Materials (FLASHit) and MaX Centre
Area della Ricerca di Roma 1, 00016 Monterotondo Scalo, Italy http://www.ism.cnr.it/en/davide-sangalli-cv/ http://www.max-centre.eu/
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