Hi Antonio,
I would say try h5repack but I just tried that (below)
and it also creates files that cannot be read by ncwa.
I have not tested chunking using the Java library.
It's certainly worth a try.
cz
zender@roulee:~$ time ncks -O -4 --cnk_dmn latitude,4 --cnk_dmn
longitude,4 --cnk_dmn time,512 ~/2014.nc ~/2014_ch_ncks.nc
real 2m22.212s
user 0m39.139s
sys 1m38.901s
zender@roulee:~$ time nccopy -c time/512,latitude/4,longitude/4
~/2014.nc ~/2014_ch_nccopy.nc
real 2m21.440s
user 0m38.865s
sys 1m37.674s
zender@roulee:~$ time h5repack -l u10m:CHUNK=512x4x4 -i ~/2014.nc4 -o
~/2014_ch_h5repack.nc
real 0m2.683s
user 0m0.423s
sys 0m0.442s
zender@roulee:~$ ncwa -O ~/2014_ch_ncks.nc ~/foo.nc
Segmentation fault
zender@roulee:~$ ncwa -O ~/2014_ch_nccopy.nc ~/foo.nc
*** Error in `ncwa': double free or corruption (fasttop):
0x0000000001f22b70Segmentation fault
zender@roulee:~$ ncwa -O ~/2014_ch_h5repack.nc ~/foo.nc
Segmentation fault
--
Charlie Zender, Earth System Sci. & Computer Sci.
University of California, Irvine 949-891-2429 )'(
