Difference between revisions of "GCHP Output Data"
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===Diagnostic Data=== | ===Diagnostic Data=== | ||
Revision as of 19:05, 1 March 2019
Previous | Next | User Manual Home | GCHP Home
- Hardware and Software Requirements
- Downloading Source Code
- Obtaining a Run Directory
- Setting Up the GCHP Environment
- Compiling
- Basic Example Run
- Configuring a Run
- Output Data
- Developing GCHP
- Run Configuration Files
Contents
GCHP Output
List of Output Files
Running GCHP produces several output data and log files. The table belows lists what files to expect. All of these files are deleted if you run make cleanup_output within the run directory.
| Filename | Description | Notes |
|---|---|---|
| OutputDir/GCHP.{collection}.YYYYMMDD_HHmmz.nc4 | Cubed sphere output data. Note that you can change the filename format for any collection within HISTORY.rc. | |
| gchp.log | Log file containing GCHP standard output including what would typically go to a GEOS-Chem Classic log file. Note that you can change this log file's name when you run GCHP by editing it in your run script. | Please include this file when submitting a support request. |
| PET00000.GEOSCHEMchem.log | Can be ignored. | |
| HEMCO.log | Log file generated by HEMCO. This file is also output when running GEOS-Chem classic. | Please include this file when submitting a support request. |
| cap_restart | MAPL output text file containing GCHP run end time to be used as the next run's start time if doing multi-segmented runs. If not doing multi-segmented runs then this file should be deleted prior to rerunning so that start information in CAP.rc is used instead. | Please include this file when submitting a support request. |
| *.rcx | Contains basic information about each diagnostic collection. | |
| EGRESS | Can be ignored. | |
| trac_avg.gchp_c24_standard.YYYYMMDDHHmm | Can be ignored. All GCHP data output diagnostics data is stored in the OutputDir subdirectory. |
If you run GCHP using SLURM then you will also have a slurm output file that will contain potentially valuable information about your run.
Diagnostic Data
GCHP diagnostic data is in netCDF-4 format and is stored in the OutputDir directory within your run directory. The output filename format is GCHP.collection.YYYYMMDD_HHmmz.nc4 where one or more collection names are configured in the output configuration file HISTORY.rc. You are free to create as many additional collections with any names you choose by adding them to HISTORY.rc. Any 2D or 3D arrays stored in State_Met, State_Chm, or State_Diag can be included in a History collection.
Data Visualization and Post-Processing
GEOS-Chem Classic users typically use IDL GAMAP for GEOS-Chem data visualization and analysis. However, this software is only compatible with lat-lon data. It therefore is not possible to use it directly with GCHP output data which is on a cubed sphere grid. Other tools have therefore been developed to use specifically with GCHP data. Functionalities include regridding between cubed sphere and lat-lon, plotting on either a cubed sphere or lat-lon grid, and direct comparison of GEOS-Chem Classic and GCHP output data via regridding. See the following resources to get started. Please note that all of these resources can also be used with GEOS-Chem Classic netcdf output data.
- gcpy python package for GEOS-Chem ***Recommended***
- Jupyter notebooks developed by Lizzie Lundgren (Harvard) with example python code to explore, plot, regrid, and compare GCHP and GEOS-Chem netcdf diagnostics using the xESMF and cubedsphere packages developed by Jiawei Zhuang (Harvard).
- GEOS-Chem python tutorial written by Jiawei Zhuang for handling GEOS-Chem lat-lon data in both NetCDF and binary formats.
- FORTRAN tool CSRegridTool developed by Sebastian Eastham (MIT) to regrid cubed sphere and lat-lon netcdf files.
- Matlab package CSGrid developed by Sebastian Eastham (MIT) to provide a data analysis and visualization suite for both cubed sphere and lat-lon GEOS-Chem data.
