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If you need POP2 (e.g. compset B), enter cpan, key in: install Switch, then exit cpan.

** Cluster update May 2024: CESM1 had compilation issues. If you need to run CESM1, please email sweidman at g dot harvard dot edu for instructions (until I update this wiki page). **

**Rocky8 update**

The netcdf software is now in two locations (netcdf-c and netcdf-fortran). CESM will break unless you put them in the same folder. One option is to copy the files for netcdf-c and netcdf-fortran in /n/sw/ into one folder in your home directory and combine the files in bin, lib, and include into the same folder. You can also copy

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export NETCDF=${NETCDF_HOME}

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cp /n/home05/pchan/spcam2_0-cesm1_1_1/scripts/create_new_build.sh ~/ #please copy a newer version after May 2018 (the CentOS7 update)

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How namelists are built in CESM?

$RUNDIR/*_in are namelists directly read by Fortran program. They are recommended NOT to be edited directly, but instead, indirectly through user_nl_* and env_*.xml. The processes of indirectly creating namelists are as follows:

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preview_namelists
- calls Buildconf/$comp.buildnml.csh
- copies *_in to CaseDocs/

Buildconf/$comp.buildnml.csh
- call $CCSMROOT/models/**/bld/build-namelist, which create namelist Buildconf/*conf/*_in
- copy *_in to $RUNDIR (overwrite)

build-namelist
- takes “infile” from user_nl_*
- writes out Buildconf/*conf/*_in and Buildconf/*.input_data_list

When job is submitted:

$CASE.submit submits $CASE.run
$CASE.run calls preview_namelists
Same things happen again.

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How to modify namelists in CESM?

If possible, always use user_nl_* and env_*.xml.

E.g. Change the path to an input data file: ./xmlchange SSTICE_DATA_FILENAME=/path/to/new_sst.nc (this can also be listed as a line in user_nl_cam).

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If impossible, manually change $RUNDIR/*_in, and disable copying (overwriting) in Buildconf/$comp.buildnml.csh

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grep -Ev '^\s*$|^\s*!' user_nl_*
can display all non-empty uncommented lines in user_nl_*
./preview_namelists can update namelists (and input_data_list)
grep '' Buildconf/*.input_data_list
can list out all input data.
DIN_LOC_ROOT=`./xmlquery -valonly -silent DIN_LOC_ROOT`
./check_input_data -inputdata $DIN_LOC_ROOT -check
can check input data
Section &seq_infodata_inparm in drv_in can be checked in $RUNDIR/cpl.log.$LID
Always compare default namelist and new namelist
Sometimes, user_nl_* are not interpreted literally. E.g. specifying prescribed_ozone_file could remove lines for prescribed_ozone_cycle_yr, prescribed_ozone_name, etc.
Never edit namelist in CaseDocs/ or Buildconf/, they are overwritten every time and NOT read by Fortran program.