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A complete description of all available flags is given in comments embedded in ncclimo, and for convenience here is a summary:
-s: start year (example: 1980). Unless the optional flag "-a sdd" is specified, the The first month used will be Dec of the year before the start year you specify (example Dec 1979 to allow for contiguous DJF climos). If "-a sdd" is specified, the first month used will be Jan of the specified start year.
-a: type of average
-a scd (default) : seasonally continuous December. The first month used will be Dec of the year before the start year you specify with -s
-a sdd : seasonally discontinuous December. The first month used will be Jan of the specified start year.
-e: end yr (example: 2000). Unless the optional flag "-a sdd" is specified, the last month used will be Nov of the specified end year. If "-a sdd" is specified, the last month will be Dec of the specified end year.
-i: directory containing all netcdf files to be used for input to this code.
-o: directory where computed climo files should be placed.
-O: directory where regridded climo files should be placed.
-c: caseid, i.e., simulation name. For input files like famipc5_ne30_v0.3_00001.cam.h0.1980-01.nc, specify "-c famipc5_ne30_v0.3_00001". The ".cam." and ".h0." bits are added to the filenames internally by default, and can be modified via the "-m mdl_nm" and "-h hst_nm" switches if needed. See comments in ncclimo for documentation.
-m: model type. Default is "cam". Other options are "clm2", "ocn", "ice", "cism", "cice", "pop".
-v: variable list, e.g., FSNT,AODVIS,PREC.? (yes, regular expressions work so this expands to PRECC,PRECL,PRECSC,PRECSL)
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