Using my own JRA files

[kshedstrom@alaska_edu]

My case is using JRA files and runs fine on cheyenne. On our Linux cluster at home, I already have some JRA forcing files and I'd rather use them. Instead, the CESM system wants to download the 1.3_noleap JRA files - and fails:

Loading input file list: 'Buildconf/cpl.input_data_list'
Client protocol gftp not enabled
Using protocol wget with user anonymous and passwd user@example.edu
Trying to download file: '../inputdata_checksum.dat' to path '/center1/AKWATERS/kate/climate/kshedstrom/Arctic5_JRA.MOM6/run/inputdata_checksum.dat.raw' using WGET protocol.
SUCCESS

Using protocol ftp with user anonymous and passwd user@example.edu
server address ftp.cgd.ucar.edu root path cesm/inputdata
Trying to download file: '../inputdata_checksum.dat' to path '/center1/AKWATERS/kate/climate/kshedstrom/Arctic5_JRA.MOM6/run/inputdata_checksum.dat.raw' using FTP protocol.
Using protocol svn with user  and passwd
Client protocol None not enabled
Checking server ftp://gridanon.cgd.ucar.edu:2811/cesm/inputdata/ with protocol gftp
ERROR: module command modulecmd python purge  failed with message:

(Yes, a blank message)

It succeeded in downloading the dice file, so I'd be good to go if I could get it to use my JRA files. I tried changing the Buildconf and CaseDocs files, but they were overwritting by case.submit, causing it to fail again.

I did have it passing ./check_input_data, but had to do this:

diff --git a/scripts/lib/CIME/case/check_input_data.py b/scripts/lib/CIME/case/check_input_data.py
index 5a4bf3321..c845d27f8 100644
--- a/scripts/lib/CIME/case/check_input_data.py
+++ b/scripts/lib/CIME/case/check_input_data.py
@@ -318,6 +318,7 @@ def check_input_data(case, protocol="svn", address=None, input_data_root=None, d
                 if(full_path):
                     # expand xml variables
                     full_path = case.get_resolved_value(full_path)
+                    rel_path = full_path
                     if input_ic_root and input_ic_root in full_path \
                        and ic_filepath:
                         rel_path = full_path.replace(input_ic_root, ic_filepath)

 

[kshedstrom@alaska_edu]

OK, I fixed it so it finds my JRA files (had to resort to a symbolic link), but I still get:

ERROR: module command modulecmd python purge  failed with message:

(blank line) from ./case.submit.

 

[kshedstrom@alaska_edu]

Here's my config_machines chunk:

  <machine MACH="chinook">
    <DESC>Chinook Linux Cluster UAF, 24 pes/node, InfiniBand, Relion 1900, batch system Scyld</DESC>
    <OS>LINUX</OS>
    <COMPILERS>gnu,intel</COMPILERS>
    <MPILIBS>openmpi</MPILIBS>
    <CIME_OUTPUT_ROOT>/center1/AKWATERS/kate/climate/$USER</CIME_OUTPUT_ROOT>
    <DIN_LOC_ROOT>/center1/AKWATERS/kate/climate/cesm/inputdata</DIN_LOC_ROOT>
    <DIN_LOC_ROOT_CLMFORC>/center1/AKWATERS/kate/climate/cesm/inputdata/atm/datm7</DIN_LOC_ROOT_CLMFORC>
    <DOUT_S_ROOT>/import/AKWATERS/$USER/archive/$CASE</DOUT_S_ROOT>
    <BASELINE_ROOT>/center1/AKWATERS/kate/climate/cesm/ccsm_baselines</BASELINE_ROOT>
    <CCSM_CPRNC>/center1/AKWATERS/kate/climate/cesm/tools/cprnc/cprnc</CCSM_CPRNC>
    <GMAKE>make</GMAKE>
    <GMAKE_J>4</GMAKE_J>
    <BATCH_SYSTEM>slurm</BATCH_SYSTEM>
    <SUPPORTED_BY>uaf-rcs -at- alaska.edu</SUPPORTED_BY>
    <MAX_TASKS_PER_NODE>24</MAX_TASKS_PER_NODE>
    <MAX_MPITASKS_PER_NODE>24</MAX_MPITASKS_PER_NODE>
    <PROJECT_REQUIRED>TRUE</PROJECT_REQUIRED>
    <mpirun mpilib="openmpi">
      <executable>mpirun</executable>
      <arguments>
      </arguments>
    </mpirun>
    <module_system type="module">
      <init_path lang="sh">/usr/share/Modules/init/sh</init_path>
      <init_path lang="bash">/usr/share/Modules/init/bash</init_path>
      <init_path lang="csh">/usr/share/Modules/init/csh</init_path>
      <init_path lang="python">/usr/share/Modules/init/python.py</init_path>
      <init_path lang="perl">/usr/share/Modules/init/perl.pm</init_path>
      <cmd_path lang="sh">module</cmd_path>
      <cmd_path lang="bash">module</cmd_path>
      <cmd_path lang="csh">module</cmd_path>
      <cmd_path lang="python">modulecmd python</cmd_path>
      <cmd_path lang="perl">modulecmd perl</cmd_path>
      <modules>
        <command name="purge"/>
      </modules>
      <modules compiler="gnu">
        <command name="load">slurm</command>
        <command name="load">toolchain/foss/2019b</command>
      </modules>
      <modules compiler="intel">
        <command name="load">slurm</command>
        <command name="load">toolchain/pic-intel/2016b</command>
        <command name="load">data/netCDF-Fortran/4.4.4-pic-intel-2016b</command>
        <command name="load">geo/ESMF/7.0.0-pic-intel-2016b</command>
        <command name="load">devel/CMake/3.5.2-pic-intel-2016b</command>
      </modules>
    </module_system>
    <environment_variables>
      <env name="OMP_STACKSIZE">64M</env>
    </environment_variables>
    <environment_variables comp_interface="nuopc" DEBUG="FALSE" compiler="gnu">
      <env name="ESMFMKFILE">/import/home/kshedstrom/lib/libO/Linux.gfortran.64.mpiuni.default/esmf.mk</env>
    </environment_variables>
    <environment_variables comp_interface="nuopc" DEBUG="TRUE" compiler="gnu">
      <env name="ESMFMKFILE">/import/home/kshedstrom/lib/libO/Linux.gfortran.64.mpiuni.default/esmf.mk</env>
    </environment_variables>
    <environment_variables comp_interface="nuopc" compiler="intel">
      <env name="ESMFMKFILE">/import/AKWATERS/kshedstrom/src/my-esmf/lib/libO/Linux.gfortran.64.mpiuni.default/esmf.mk</env>
    </environment_variables>
    <environment_variables comp_interface="nuopc">
      <env name="ESMF_RUNTIME_PROFILE">ON</env>
      <env name="ESMF_RUNTIME_PROFILE_OUTPUT">SUMMARY</env>
    </environment_variables>
  </machine>

(Compiling with intel now)