After a long discussion, I implemented the rules at the end of that issue.
They are documented in nccopy.1.
Additionally, I added a new, per-variable, -c flag that allows
for the direct setting of the chunking parameters for a variable.
The form is
-c var:c1,c2,...ck
where var is the name of the variable (possibly a fully qualified name)
and the ci are the chunksizes for that variable. It must be the case
that the rank of the variable is k. If the new form is used as well
as the old form, then the new form overrides the old form for the
specified variable. Note that multiple occurrences of the new form
-c flag may be specified.
Misc. Other fixes
1. Added -M <size> option to nccopy to specify the minimum
allowable chunksize.
2. Removed the unused variables from bigmeta.c
(Issue https://github.com/Unidata/netcdf-c/issues/1079)
3. Fixed failure of nc_test4/tst_filter.sh by using the new -M
flag (#1) to allow filter test on a small chunk size.
Add -c '/' option to specify changing layout for all variables from chunked to contiguous.
Fix logic for chunking and compression depending on input and output formats.
