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87 changes: 87 additions & 0 deletions docs/source/v1/BGC/index.rst
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E3SMv1 (BGC)
====================

The `E3SM version 1 BGC simulation campaign <https://e3sm.org/research/bgc-and-energy/v1-bgc-and-energy/>`_ includes standard set of
Coupled Model Intercomparison Project Phase 6 (`CMIP6 <https://www.geosci-model-dev.net/9/1937/2016/>`_)
Diagnosis, Evaluation, and Characterization of Klima (DECK) simulations.
These E3SM simulations at standard resolution have been completed and the data is publicly available.

Data Resolution:

The standard resolution configuration of E3SM v1.0 BGC configuration has approximate horizontal resolution of
1 deg latitude by 1 deg longitude in atmosphere (110 km grid spacing),
with ocean and sea ice grid of 60 km in the mid-latitudes and 30 km at the equator and poles,
and river transport at 55 km horizontal resolution.
This model configuration is described in
`“v1 1 deg CMIP” <https://e3sm.org/model/scientifically-validated-configurations/v1-configurations/v1-1-deg-cmip6/>`_ page
in `Scientifically Validated Configurations <https://e3sm.org/model/scientifically-validated-configurations/>`_.
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For more details,
refer to `Coupled E3SM v1 Model Overview <https://e3sm.org/overview-paper-on-coupled-model/>`_ or to the reference papers:

* *The DOE E3SM Coupled Model Version 1: Overview and Evaluation at Standard Resolution* `doi: 10.1029/2018MS001603 <https://doi.org/10.1029/2018MS001603>`_
* *Description of historical and future projection simulations by the global coupled E3SMv1.0 model as used in CMIP6* `doi:10.5194/gmd-15-3941-2022 <https://doi.org/10.5194/gmd-15-3941-2022>`_
* *Ensemble Spread Behavior in Coupled Climate Models: Insights From the Energy Exascale Earth System Model Version 1 Large Ensemble* `doi:10.1029/2023MS003653 <https://doi.org/10.1029/2023MS003653>`_
* *The DOE E3SM Coupled Model Version 1: Description and Results at High Resolution* `doi:10.1029/2019MS001870 <https://doi.org/10.1029/2019MS001870>`_
* *The DOE E3SM v1.1 Biogeochemistry Configuration: Description and Simulated Ecosystem-Climate Responses to Historical Changes in Forcing* `doi:10.1029/2019MS00176 <https://doi.org/10.1029/2019MS001766>`_

Experiments:

The datasets include the following experiments. Each case has a historical run and a ssp85 run. CTC and ETA are two approaches to modeling soil biogeochemistry. B and R refer to biogeochemical CO\ :sub:`2`\ and radiative CO\ :sub:`2`\ respectively. C and D refer to constant and diagnostic respectively. Please see section 4.1 "Experimental Design and Overview of the Simulations" and Table 3 "E3SMv1.1-BGC Simulations Overview" of the `relevant paper <https://agupubs.onlinelibrary.wiley.com/doi/full/10.1029/2019ms001766>`_ for more information.

* CTC Control

* E3SM_1_1_piControl (20181217.CNTL_CNPCTC1850_OIBGC.ne30_oECv3.edison)
* E3SM_1_1_piControl-ext85yr (20191204.CNTL_CNPCTC1850_OIBGC.ne30_oECv3.compy)

* CTC BCRC

* E3SM_1_1_hist-BCRC (20181217.BCRC_CNPCTC20TR_OIBGC.ne30_oECv3.edison)
* E3SM_1_1_ssp585-BCRC (20191107.BCRC_CNPCTC_SSP585_OIBGC.ne30_oECv3.compy)

* CTC BCRD

* E3SM_1_1_hist-BCRD (20181217.BCRD_CNPCTC20TR_OIBGC.ne30_oECv3.edison)
* E3SM_1_1_ssp585-BCRD (20191204.BCRD_CNPCTC_SSP585_OIBGC.ne30_oECv3.compy, 20190812.BCRD_CNPCTC20TR_OIBGC.ne30_oECv3.compy/archive)

* CTC BDRC

* E3SM_1_1_hist-BDRC (20181217.BDRC_CNPCTC20TR_OIBGC.ne30_oECv3.edison)
* E3SM_1_1_ssp585-BDRC (20191107.BDRC_CNPCTC_SSP585_OIBGC.ne30_oECv3.compy)

* CTC BDRD

* E3SM_1_1_hist-BDRD (20181217.BDRD_CNPCTC20TR_OIBGC.ne30_oECv3.edison)
* E3SM_1_1_ssp585-BDRD (20191204.BDRD_CNPCTC_SSP585_OIBGC.ne30_oECv3.compy)

* ECA Control

* E3SM_1_1_ECA_piControl (20190308.CNTL.1850-2014)
* E3SM_1_1_ECA_piControl-ext85yr (CNTL_CNPECACNT_SSP85.ne30_oECv3.cori-knl)

* ECA BCRC

* E3SM_1_1_ECA_hist-BCRC (BCRC_CNPECACNT_20TR.ne30_oECv3.edison, BCRC_CNPECACNT_20TR.ne30_oECv3.cori-knl)
* E3SM_1_1_ECA_ssp585-BCRC (BCRC_CNPECACNT_SSP85.ne30_oECv3.cori-knl)

* ECA BCRD

* E3SM_1_1_ECA_hist-BCRD (BCRD_CNPECACNT_20TR.ne30_oECv3.edison, BCRD_CNPECACNT_20TR.ne30_oECv3.cori-knl)
* E3SM_1_1_ECA_ssp585-BCRD (BCRD_CNPECACNT_SSP85.ne30_oECv3.cori-knl)

* ECA BDRC

* E3SM_1_1_ECA_hist-BDRC (20190308.BDRC.1850-2014)
* E3SM_1_1_ECA_ssp585-BDRC (20191108.BDRC.SSP85)

* ECA BDRD

* E3SM_1_1_ECA_hist-BDRD (20190308.BDRD.1850-2014)
* E3SM_1_1_ECA_ssp585-BDRD (20191108.BDRD.SSP85)


.. toctree::
:maxdepth: 2
:caption: Contents:

simulation_data/index
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***************
Simulation Data
***************

The E3SMv1 simulation data is available on **NERSC HPSS**.

All native model output data has also been archived on **NERSC HPSS** using `zstash <https://e3sm-project.github.io/zstash>`_.

**If you have an account on NERSC**, you can retrieve the data locally or remotely using Globus.

To download simulation data locally on a NERSC machine: ::

zstash extract --hpss=<HPSS path in table>

To download simulation data remotely using the zstash Globus interface: ::

zstash extract --hpss=globus://nersc/<HPSS path in table>

or ::

zstash extract --hpss=globus://9cd89cfd-6d04-11e5-ba46-22000b92c6ec/<HPSS path below>

Note that the data management tool `zstash <https://github.com/E3SM-Project/zstash>`_ is available from the `E3SM-Unified <https://github.com/E3SM-Project/e3sm-unified>`_ conda environment. An example of retrieving all **cam.h0** (monthly atmosphere output files) between **years 0030 and 0049** for the piControl simulation at NERSC locally is demonstrated as below in two steps:

1. To activate E3SM-Unified environment by:
::

source /global/common/software/e3sm/anaconda_envs/load_latest_e3sm_unified_pm-cpu.sh

2. To retrieve files with zstash command:
::

zstash ls --hpss=/home/projects/e3sm/www/BGC/E3SMv1/E3SM_1_1_piControl "*.cam.h3.18[5-6]?-??-??-?????.nc"


For more information, refer to `zstash usage <https://e3sm-project.github.io/zstash/_build/html/master/usage.html#extract>`_.


**If you do not have access to NERSC**, you can download simulation data directly through the NERSC HPSS
`web interface <https://portal.nersc.gov/archive/home/projects/e3sm/www/BGC/E3SMv1>`_.
Note that this will be slow and inefficient since you'll have to download the tar files.

**v1.LR** simulations data has been archived on NERSC HPSS under: ::

/home/projects/e3sm/www/BGC/E3SMv1/LR

and **v1.HR** simulations data under: ::

/home/projects/e3sm/www/BGC/E3SMv1/HR


Scripts are not available to reproduce v1 simulations.

Some original run scripts (the scripts that were originally used to create the simulations) have been archived here `here <https://github.com/E3SM-Project/e3sm_data_docs/tree/main/run_scripts/v1/original/>`_. If a script is not collected here, you can try looking for the provenance run script with:
::

zstash extract --hpss=/home/projects/e3sm/www/BGC/E3SMv1/<simulation_name>/ case_scripts/run_script_provenance/*

.. toctree::
:maxdepth: 2
:caption: Contents:

simulation_table
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