forked from ESCOMP/CTSM
-
Notifications
You must be signed in to change notification settings - Fork 0
/
README
180 lines (142 loc) · 9.92 KB
/
README
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
$CTSMROOT/README 04/19/2023
Community Terrestrial Systems Model (CTSM) science version 5.2 series -- source code, tools,
offline-build and test scripts. This gives you everything you need
to run CTSM with CESM with the CMEPS driver and CDEPS data models to provide CRU NCEP or GSWP3 forcing data in
place of a modeled atmosphere.
CMEPS is the Community Mediator for Earth Prediction Systems. And CDEPS is the
Community Data Models for Earth Prediction System. They are both NUOPC based models
used to drive the CESM (Community Earth System Model) of which CTSM is a component of.
NUOPC is the National Unified Operational Prediction Capability a standard way of building
coupled model systems. The NUOPC layer is based on the Earth System Modeling Framework (ESMF).
For lists of current bugs (issues) and current development see the CTSM GitHub page:
https://github.com/ESCOMP/CTSM
INFORMATION ON THE CMEPS DRIVER:
https://escomp.github.io/CMEPS
https://earthsystemmodeling.org/nuopc/
IMPORTANT NOTE ON CESM CHECKOUT VERSUS A CTSM CHECKOUT:
If this is the top level directory from making a clone of CTSM the
directory structure is a little bit different than if CTSM is from
a clone of the entire CESM. If this is part of CESM this directory
will be under components/clm alongside other CESM component models.
For a CTSM checkout this will be the top level directory.
Other documentation will refer to $CTSMROOT and it means the directory
that this file is at. CIMEROOT is the directory where "cime" is for
this checkout. For a CESM checkout $CIMEROOT will be the "cime" directory
beneath the top level directory. For a CTSM checkout $CIMEROOT will
be $CTSMROOT/cime.
IMPORTANT NOTE ABOUT (deprecated)
Anything marked with (deprecated) is something is going to be removed in a future update.
Often this means it will be replaced with something else.
General directory structure ($CTSMROOT):
doc --------------- Documentation of CTSM.
bld --------------- build-namelist scripts for CTSM.
src --------------- CTSM Source code.
lilac ------------- Lightweight Infrastructure for Land-Atmosphere Coupling (for coupling to a host atmosphere model)
tools ------------- CTSM Offline tools to prepare input datasets and process output.
cime_config ------- Configuration files of cime for compsets and CTSM settings
bin/git-fleximod -- Script to manage the external source directories
py_env_create ----- Script to setup the python environment for CTSM python tools using conda
python ------------ Python modules used in tools and testing and automated checking of ALL CTSM python scirpts
Directory structure only for a CTSM checkout:
components -------- Other active sub-components needed for CTSM to run (river routing and land-ice models)
libraries --------- CESM libraries: PIO (deprecated)
share ------------- CESM shared code
ccs_config -------- CIME configure files (for grids, compsets, and machines) for CESM
cime/scripts --------------- cesm/cime driver scripts
components/cmeps -------------------- CESM top level driver (for NUOPC driver [which is the default]) source code.
components/cdeps -------------------- CESM top level data model shared code (for NUOPC driver).
components/cism --------------------- CESM Community land Ice Sheet Model.
components/mosart ------------------- Model for Scale Adaptive River Transport
components/rtm ---------------------- CESM River Transport Model.
Top level documentation ($CTSMROOT):
README ------------------- This file
README.md ---------------- File that displays on github under https::/github.com/ESCOMP/CTSM.git
README.rst --------------- File that displays under the project in github
README_GITFLEXIMOD.rst --- Information on how to work with git-fleximod for CTSM
CODE_OF_CONDUCT.md ------- Code of Conduct for how to work with each other on the CTSM project
Copyright ---------------- CESM Copyright file
doc/UpdateChangeLog.pl --- Script to add documentation on a tag to the
ChangeLog/ChangeSum files
doc/ChangeLog ------------ Documents different CTSM versions
doc/ChangeSum ------------ Summary documentation of different CTSM versions
doc/design --------------- Software Engineering and code design document files
Checklists for standard Software Engineering tasks
./doc/README.CHECKLIST.master_tags
./bld/namelist_files/README.CHECKLIST.interpolating_initial_conditions.md
Documentation of Namelist Items: (view the following in a web browser)
bld/namelist_files/namelist_definition_ctsm.xml --- Definition of all namelist items
bld/namelist_files/namelist_defaults_ctsm.xml ----- Default values
=============================================================================================
Important files in main directories (under $CTSMROOT):
=============================================================================================
run_sys_tests --------------- Python script to send the standard CTSM testing off (submits
the create_test test suite for several different compilers on the
machines we do standard CTSM testing on).
parse_cime.cs.status -------- Script to parse test status files cs.status.* created by create_test
(can be used along with run_sys_tests)
doc/Quickstart.GUIDE -------- Quick guide to using NUOPC scripts.
doc/IMPORTANT_NOTES --------- Some important notes about this version of
CTSM, configuration modes and namelist items
that are not validated or functional.
doc/ChangeLog --------------- Detailed list of changes for each model version.
doc/ChangeSum --------------- Summary one-line list of changes for each
model version.
doc/UsersGuide -------------- CTSM Users Guide
doc/IMPORTANT_NOTES --------- Some important notes on caveats for some configurations/namelist items
bld/README ------------------ Description of how to use the build-namelist scripts.
bld/build-namelist ---------- Script to build CTSM namelists.
cime_config/buildnml ------------- Build the CTSM namelist for CIME
cime_config/buildlib ------------- Build the CTSM library
cime_config/config_compsets.xml -- Define CTSM compsets
cime_config/config_component.xml - Define CTSM XML settings
cime_config/config_tests.xml ----- Define CTSM specific tests
cime_config/config_pes.xml ------- Define Processor layouts for various CTSM grids and compsets
cime_config/testdefs ------------- Directory for specification of CTSM testing
cime_config/testdefs/ExpectedTestFails.xml -- List of tests that are expected to fail
cime_config/usermods_dirs -------- Directories of sets of user-modification subdirs
(These are directories that add specific user modifications to
simulations created using "cime/scripts/create_newcase --user-mods-dir".)
tools/mksurfdata_esmf --------- Directory to build program to create surface dataset
at any resolution.
tools/mkprocdata_map ---------- Process history data from unstructed grids to a gridded
format.
tools/mkmapgrids -------------- NCL script to create a SCRIP grid file for a regular lat/lon grid (deprecated)
tools/crop_calendars ---------- Tools to process and process and create crop calendar datasets for CTSM
tools/modify_input_files ------ Script to modify existing CTSM input datasets in standard ways
tools/site_and_regional ------- Scripts to create input datasets for single site and regional
cases, primarily by modifying existing global datasets
tools/contrib ----------------- Miscellansous useful scripts for pre and post processing
as well as case management of CTSM. These scripts are
contributed by users and may not be as well tested or
supported as other tools.
=============================================================================================
Source code directory structure:
=============================================================================================
src/biogeochem ---- Biogeochemisty
src/main ---------- Main control and high level code
src/cpl ----------- Land model high level caps for NUOPC driver (and LILAC)
src/biogeophys ---- Biogeophysics (Hydrology)
src/dyn_subgrid --- Dynamic land unit change
src/init_interp --- Online interpolation
scr/fates --------- FATES model and sub-directories
Functionally Assembled Terrestrial Ecosystem Simulator (FATES)
Experimental Ecosystem Demography model
src/utils --------- Utility codes
src/self_tests ---- Internal testing (unit tests run as a part of a CTSM simulation)
src/unit_test_shr - Unit test shared modules for unit testing
src/unit_test_stubs Unit test stubs that replicate CTSM code simpler
=============================================================================================
QUICKSTART: using the NUOPC driver scripts
=============================================================================================
cd $CIMEROOT/scripts
./create_newcase # get help on how to run create_newcase
./create_newcase --case testI --res f19_g17_gl4 --compset I2000Clm60BgcCrop
# create new "I" case for default machine at 1.9x2.5_gx1v7
# "I2000Clm60BgcCrop" case is clm6_0 physics, CDEPS, and inactive ice/ocn/glc
# and MOSART for river-routing
cd testI
./case.setup # create the $CASE.run file
./case.build # build model and create namelists
./case.submit # submit script
# (NOTE: ./xmlchange RESUBMIT=10 to set RESUBMIT to number
# # of times to automatically resubmit -- 10 in this example)