Community Earth System Model (CESM1.1.1) Known Problems

Known Problems in CESM1.1.1

CESM1.1.1 is now supported on machines Yellowstone and Titan. CESM1.1.1 has the flexibility to configure cases with many different combinations of component models, grids, and models settings. We are in the process of scientifically validating more resolutions and component sets, primarily targeted to CAM5 component sets. Validated CESM1.1.1 model results and diagnostics are posted under Experiments & Diagnostics.

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Component Sets (COMPSETS)

(Bugzilla 1645) Problem using compsets FSTRATMAM3 and FSTRATMAM7

The entry CICE_NAMELIST_OPTS in the env_run.xml file should have value cam5=.true. in cesm1_1, cesm1_1_1, and cesm1_2 beta01 through beta03. It does not. This results in an incorrect cice albedo setting. The workaround is to run the following command in your case directory:

./xmlchange -file env_run.xml -id CICE_NAMELIST_OPTS -val "cam5=.true."

This problem also pertains to release CESM1.1, and development tags cesm1_2_beta01 and cesm1_2_beta02 and cesm1_2_beta03.

(Bugzilla 1605) Incompatible initial conditions with BG1850CN at f09 resolution for both CLM and CISM.

(Bugzilla 1606) Running IAF compsets (CIAF, DIAF, GIAF) on non-NCAR machines.

atmosphere/CAM

(Bugzilla 1629) Using the variable "fincl[12345678]lonlat" in the cam namelist causes a memory leak.

This leak can be avoided by setting

  collect_column_output=.true.,.true.,.true.,.true.,.true.,.true.,.true.,.true.

or by adding

  deallocate(ldof)

in file models/atm/cam/src/utils/cam_pio_utils.F90 just before the endif statement at the end of routine get_phys_decomp_mdnd.

(Bugzilla 1612) WACCM compset incompatible with ESMF library.

(Bugzilla 1614) WACCM5 (WACCM with CAM5 physics) is known to crash intermittently, usually after a few months of output.

(Bugzilla 1613) FWSC compset hangs on some systems when running threaded.

(Bugzilla 1615) F compsets cannot be run with the ESMF library on.

atmosphere/WACCM

(Bugzilla 1678) WACCM-X hits a floating point exception with threading enabled.

land/CLM

(Bugzilla 1630) Changes to get mkmapdata.sh working on yellowstone

(Bugzilla 1625) Problem setting a user defined initial condition file for a hybrid or branch case.

(Bugzilla 1447) The interpinic tool does not work properly for input files with multiple glacier elevation classes.

KnownBugs for CLM List of known issues for CLM.

ocean/POP2

(Bugzilla 1656) With pnetcdf, POP2's daily stream file is incomplete when run is stopped mid-month

When pnetcdf is the ocn output method and the model is stopped on other than a month boundary, the contents of the ocn daily history file may be incomplete. The workaround is to edit models/utils/pio/piolib_mod.F90 and add a call to darray_write_complete in subroutine syncfile:

   subroutine syncfile(file)
+    use piodarray, only : darray_write_complete
     implicit none
     type (file_desc_t), target :: file
     integer :: ierr, msg
@@ -2699,6 +2700,7 @@
 
     select case(file%iotype)
     case( pio_iotype_pnetcdf, pio_iotype_netcdf)
+       call darray_write_complete(file)

(Bugzilla 1655) CECO compset runs fail when PIO_TYPENAME = pnetcdf

Variables in the ecosys_parms_nml namelist can not be set in the user_nl_pop2 file. To fix this, copy this version of namelist_definition_pop2.xml into $CASEROOT/SourceMods/src.pop2/

In multi-instance runs, the instance number is omitted from some diagnostic output file names. To fix this, copy this version of build-namelist into $CASEROOT/SourceMods/src.pop2/

The interannual forcing (IAF) data used in ocean-only and ocean/sea-ice configurations now extends through 2009, rather than 2007 as in previous versions. The model will now cycle over the years 1948 to 2009 (a 62 year span).

ice/CICE

The CICE history files have some incorrect history fields (albpnd, albice, albsno). These should not be used.

land-ice/CISM

(Bugzilla 1611) Restarts can only happen on year boundaries.

Machines / scripts

(Bugzilla 1636) Problem with pleiades

(Bugzilla 1626) CESM component Makefile rebuilds all object files if any source file is modified

When running multiple instances, not all namelist files get copied to $CASEROOT/CaseDocs/. To fix this problem, copy this version of preview_namelists into $CASEROOT

mapping/

The installation instructions for building the check_maps/ESMF_RegridWeightGenCheck utility used by the check_map.sh script assume you are building on bluefire, not yellowstone. On yellowstone, the needed environment variable ($ESMFMKFILE) is set automatically when you load the proper ESMF module. For example, run

$ module load esmf
$ module load esmf-6.1.1-ncdfio-uni-O

Note that this requires the intel module to be loaded already, and will build the executable using the serial (intel) compiler so you can run the utility from the yellowstone login node.

Related to the problem above, the ESMF executables referenced in gen_mapping_files/gen_ESMF_mapping_file/create_ESMF_map.sh point to a directory that does not exist. Replace that script with this version.

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The National Center for Atmospheric Research is sponsored by the National Science Foundation. Any opinions, findings and conclusions or recommendations expressed in this publication are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.