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Use ncclimo if possible. It requires and comes with NCO version 4.6.0 and later.  Its predecessor climo_nco.sh (which is deprecated) requires NCO version 4.5.2 or later. The newest versions of NCO are installed on rhea/titan.ccs.ornl.gov at ORNL, pileus.ornl.gov (CADES at ORNL), cooley/mira.alcf.anl.gov at ANL, cori/edison.nersc.gov (NERSC), aims4.llnl.gov (LLNL), roger.ncsa.illinois.edu (NCSA), and yellowstone.ucar.edu (NCAR). The ncclimo and ncremap scripts are hard-coded to find the latest versions automatically, and do not require any module or path changes. To use other (besides the ncclimo and ncremap scripts) NCO executables from the command-line or from your own scripts may require loading modules. This is site-specific and not under my (CZ's) control. At OLCF, for example, "module load gcc" helps to run NCO from the command-line or scripts. For other machines check that the default NCO is recent enough (try "module load nco", then "ncks --version") or use developers' executables/libraries (in ~zender/[bin,lib] on all machines). Follow these directions on the NCO homepage to install on your own machines/directories. It can be as easy as "apt-get install nco", "dnf install nco", or "conda install -c conda-forge nco", or you can build/install from scratch with "configure;make install". 

The older version of ncclimo is climo_nco.sh which is distributed separately from NCO, and therefore cannot be as tightly coupled to new NCO features. The two are still nearly interchangeable so all documented features (except where indicated otherwise) apply to both.  You can obtain the deprecated script at https://github.com/ACME-Climate/PreAndPostProcessingScripts/blob/master/generate_climatologies/climo_nco.sh or check-out the entire PreAndPostProcessingScripts Git repo (a better option for keeping up-to-date with changes to this script) with "git clone git@github.com:ACME-Climate/PreAndPostProcessingScripts.git". Here's the ACME Git Tutorial. If you have permissions problems, try this: https://help.github.com/articles/generating-ssh-keys.

Using ncclimo:

Standard climos (produce monthly + seasonal + annual climos from monthly input files):

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ncclimo -m clm2 -s start_yr -e end_yr -c run_id -i drc_in -o drc_out # ALM/CLM

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CLM

Each option can be accessed by a handful of long-option synonyms to suit users' tastes. With long options the first example above may be rewritten as

ncclimo --start=start_yr --end=end_yr --case=run_id --input=drc_in --output=drc_out

When invoked without options ncclimo outputs a handy table of all available options, their synonyms, and some examples. NCO documentation here describes the full meaning of all options. A short summary of the most common options is:

-a: type of DJF average. Either -a scd (default) or -a sdd. scd is seasonally continuous December. The first month used will be Dec of the year before the start year you specify with -s. sdd is seasonally discontinuous December. The first month used will be Jan of the specified start year.

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MPAS ocean and ice models currently have their own (non-CESM'ish) naming convention for monthly output files. that guarantees output files have the same names for all simulations. By default ncclimo analyzes the "timeSeriesStatsMonthly" analysis member output (tell CZ if you want options for other AM output). ncclimo recognizes input files as being MPAS-style when invoked with "-m mpaso" or "-m mpascice" . Invocation looks like this:

ncclimo -m mpaso    -s 1980 -e 1983 -i drc_in -o drc_out # MPAS-O

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