remapcon leading to "segmentation fault (core dumped)" error
Added by Andreas Prein almost 10 years ago
Hi,
I want to remap netcdf files with cdo (v1.6.3) remapcon and get a "segmentation fault (core dumped)" error. Strangely, if I try the same command several times it succeeds every ~3rd time and sometimes crashes with different error messages (Bus error (core dumped); Error (cdf_close) : NetCDF: HDF error). For larger files (longer time periods) it never succeeds.
Here is the cdo comand that I am using for the remapping:
cdo remapcon,tar_grid.nc -selvar,Data -setgrid,src_grid.nc SourceData.nc TargetData.nc
The according netcdf files are attached.
Thank you for your help,
Andreas
| src_grid.nc (5.04 MB) src_grid.nc | |||
| SourceData.nc (7.2 MB) SourceData.nc | |||
| tar_grid.nc (1.26 MB) tar_grid.nc |
Replies (2)
RE: remapcon leading to "segmentation fault (core dumped)" error - Added by Uwe Schulzweida almost 10 years ago
If you are using more than one CDO operator then all these operators are running in parallel and on different threads. Therefor the netCDF/HDF5 library must be compiled thread-safe. It seems that your netCDF/HDF installation is not thread-safe.
In this case you always need to use the CDO option -L to serialize the netCDF/HDF I/O access:
cdo -L remapcon,tar_grid.nc -selvar,Data -setgrid,src_grid.nc SourceData.nc TargetData.nc
RE: remapcon leading to "segmentation fault (core dumped)" error - Added by Andreas Prein almost 10 years ago
That solved the problem.
Thank you very much for your help!
Best,
Andreas