BEHR_OMINO2 Guide for non_Berkeley

Clone BEHR_Core and other repositories

mkdir BEHR
cd BEHR
git clone https://github.com/CohenBerkeleyLab/BEHR-core.git
cd BEHR-core
./setup.sh # if you want to use develop branch, add --develop

Structure of repositories:

├── BEHR
│   ├── BEHR-core
│   ├── BEHR-core-utils
│   ├── BEHR-PSM-Gridding
│   ├── Matlab-Gen-Utils
│   ├── MatlabPythonInterface
│   └── WRF_Utils

If you don’t have permission to change Matlab path, you should add BEHR to Matlab path every time:

addpath(genpath('your_BEHR_path'))

Create behr_paths.m

Run BEHR_initial_setup in Matlab;
You will find behr_paths.m in BEHR-core-utils/Utils/Constants;
Change paths in behr_paths.m by yourself. Check that all the paths listed in behr_paths.m are correct. You can validate them by running behr_paths.ValidatePaths() in Matlab, it should return 1 (0 means at least one path is invalid).

Note

sp_mat_dir should have subdirectories for each region to be produced (e.g. “us” - must be lower case)
behr_mat_dir should have subdirectories for each region to be produced and within each region directories “daily” and “monthly”.
myd06_dir should contain folders for each year with MYD06_L2 files in them.
mcd43d_dir should contain folders for each year with MCD43D* files in them.
wrf_profiles it assumes that WRF files are organized in a directory structure behr_paths.wrf_profiles/// where is the region being retrieved (passed as the “region” input), is the four-digit year and is the two-digit month. If you specify wrf_output_path explicitly, then it assumes all WRF output files are in that directory.

Download data

Check Section 4.3 of BEHR_Read_me file.

Download url

GLOBE database

https://www.ngdc.noaa.gov/mgg/topo/gltiles.html , https://www.ngdc.noaa.gov/mgg/topo/elev/esri/hdr/

Land_Water_Mask_7Classes_UMD.hdf

ftp://rsftp.eeos.umb.edu/data02/Gapfilled/

OMNO2 and OMPIXCOR

https://mirador.gsfc.nasa.gov/

MCD43D07, MCD43D08, MCD43D09 and MCD43D31

https://e4ftl01.cr.usgs.gov/MOTA/

MYD06_L2

https://search.earthdata.nasa.gov/

sortscript.sh

https://github.com/CohenBerkeleyLab/OtherSatelliteUtils/blob/master/OMI%20Utils/DOMINO/sortscript.sh

Modify sortscript.sh:

For OMNO2:
    36     y=${fname:18:4}
    37     m=${fname:23:2}
For OMPIXCOR:
    36     y=${fname:21:4}
    37     m=${fname:26:2}

Structure example of data files:

├── GLOBE_Database
│   ├── a10g
│   ├── a10g.hdr
│   ├── ...........
│   ├── p10g
│   └── p10g.hdr
├── MODIS
│   ├── Land_Water_Mask_7Classes_UMD.hdf
│   ├── MCD43D
│   │   └── 2017
│   └── MYD06_L2
│       └── 2017
├── OMI
│   ├── OMNO2
│   │   └── version_3_3_0
│   │       ├── 2017
│   │       │   └── 04
│   │       └── download_staging
│   │           ├── download
│   │           └── sortscript.sh
│   └── OMPIXCOR
│       └── version_003
│           ├── 2017
│           │   └── 04
│           └── download_staging
│               ├── download
│               └── sortscript.sh

Read data

Set date_start, date_end, region and DEBUG_LEVEL in */BEHR/BEHR-core/Read_Data/read_main.m;
Run read_main.m
Check SP_Files.

Recalculate AMF and Tropospheric Column

Initialize parameters of BEHR_main.m
Set python environment for BEHR-PSM-Gridding and compile omi.
Run BEHR_main.m

Publish OMI_BEHR

Initialize parameters of BEHR_publishing_main.m (*/BEHR/BEHR-core/HDF tools)
Run BEHR_publishing_main.m

Reference

BEHR_Readme.pdf

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