Difference between revisions of "UKCA Chemistry and Aerosol UMvn13.0 Tutorial 1"
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+ | [[UKCA Chemistry and Aerosol UMvn13.0 Tutorial 2|Tutorial 2]] |
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| + | [[UKCA Chemistry and Aerosol Tutorials at UMvn13.0]] |
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''Written by [[User:Nla27 | Luke Abraham]] 2022'' |
''Written by [[User:Nla27 | Luke Abraham]] 2022'' |
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Revision as of 15:32, 14 September 2022
UKCA Chemistry and Aerosol Tutorials at UMvn13.0
| Difficulty | EASY |
| Time to Complete | Under 1 hour |
| Video instructions |
Remember to run mosrs-cache-password in your Rose suite and UM branch terminals.
Copying and Running an Existing Rose Suite
| Machine | UM Version/Configuration | Suite ID |
|---|---|---|
| vm | UMvn13.0 UKCA Box Model | u-cq774 |
If you are using your own Met Office Virtual Machine, you will need to login to the VM, e.g.
vagrant ssh
If you are using a VM provided for you, you should connect via X2Go or via a Terminal.
You should then be asked for your Met Office Science Repository Service (MOSRS) password. Once you enter this, if this is the first time you are logging in, you will also be asked for your MOSRS username. This will likely be your name in lower case, and is not your username on the VM.
Then copy the rose suite by:
rosie copy u-cq774
This will open an editor containing text similar to this:
description=Copy of u-cq774/trunk@236265 owner=lukeabraham project=ukca title=UMvn13.0 UKCA Box Model for UKCA Tutorials # Make changes ABOVE these lines. # The "owner", "project" and "title" fields are compulsory. # Any KEY=VALUE pairs can be added. Known fields include: # "access-list", "description" and "sub-project".
You can edit the title to make it more descriptive if you like. Then save (e.g. Ctrl-s) and close the file (e.g. Ctrl-q). The press y on the keyboard when prompted and press return.
The suite will now copy and checkout to your /home/$USER/roses directory, into a sub-directory that is the same as the SUITE-ID. You should change into this directory now using cd, e.g.
cd roses/u-ab123
then open the suite by typing
rose edit &
and pressing return. You can either run the suite by pressing the play button that looks like a triangle to the top right of the options bar, or by typing
rose suite-run
in the terminal.
If you are using your own VM, times will vary depending on the specifications of the host. It may take 2 or 3 minutes to compile the code (fcm_make) for the first time (and a few seconds when recompiling), followed by another few seconds to run UKCA itself (ukca). Any unsuccessful jobs will be highlighted in red and have a status of "failed".
When the suite has finished successfully it will then become blank with the message stopped with 'succeeded' in the bottom-left corner.
Version Control
Rose suites are all held under version control, using fcm. When making changes to a suite, you will need to save it before you can run the suite. Once you are happy with the settings, you can also commit these changes back to the repository - to do this change directory to the
/home/$USER/roses/[SUITE-ID]
and then type
fcm commit
a text editor will then open, and you should type a short message describing what the changes you have made do. You should then close the editor and type y in the terminal. It is recommended that you commit frequently (even on configurations that aren't working) as this protects you against mistakes and accidental deletions etc.
These suites can be viewed on the SRS here: https://code.metoffice.gov.uk/trac/roses-u (password required)
It is recommended that you commit your suites regularly.
Output Directory Structure
Simplified cylc-run directory structure. [SUITE-ID] will be e.g. u-cq782, and [CYCLE] is the cycle-point, e.g. 1
The output directory structure of rose suites are rather complex. The schematic gives a broad overview of the general structure. Everything can be found within the [SUITE-ID] (e.g. u-cq782 etc.) directory, which can be found within your $HOME/cylc-run directory.
Within this directory there are several directories, including:
- log: a symbolic link to a directory called something like log.20220914T092709Z, which contains all the job.out (containing output from UM WRITE statements from the umPrint subroutine) and job.err files etc., as well as the script used to run the job.
- work: this contains the directories used when the job actually runs. Real-time output will be sent to files here (held in a pe_output directory. Sometimes model output will also be here.
Within these directories there will be many sub-directories. Some of these will be named from the cycle-point (labelled [CYCLE] in the graphic. For the UKCA Training Suite this will be 1. The sub-directories will (eventually) be named after the app (labelled by [JOB NAME] in the table below) that the output is from, e.g. fcm_make, ukca etc.
| Files | General Path | Example |
|---|---|---|
| Most recent job.out files | /home/vagrant/cylc-run/[SUITE-ID]/log/job/1/[JOB NAME]/NN | /home/vagrant/cylc-run/u-cq782/log/job/1/ukca/NN |
| Processor output (while running) | /home/vagrant/cylc-run/[SUITE-ID]/work/1/[JOB NAME]/pe_output | /home/vagrant/cylc-run/u-cq782/work/1/ukca/pe_output |
| UKCA Box Model output text files in ASCII format tracer_out.csv flux_out.csv |
/home/vagrant/cylc-run/[SUITE-ID]/work/1/ukca | /home/vagrant/cylc-run/u-cq782/work/1/ukca |
Notes
- The job.out files can also be viewed through the Gcylc GUI right-click menu from each job.
- UKCA Box Model output file will be tracer_out.csv for tracers and flux_out.csv for chemical reaction fluxes. These can be renamed in Rose in the ukca namelist Model Input and Output panel.
Viewing Output
gnuplot
Plotting O3 concentrations using Gnuplot
O3 mass-mixing ratio plotted using gnuplot
The quickest and easiest way to plot UKCA box model output is using Gnuplot, which is a relatively simple command-line plotting tool. The box model outputs tracer concentrations and chemical reaction fluxes every timestep to the files tracer_out.csv and flux_out.csv respectively.
To plot these files, change into your suite's cylc-run directory and navigate to the ukca directory in work, e.g.
cd /home/vagrant/cylc-run/u-cq782/work/1/ukca
then load gnuplot by typing
gnuplot
To plot the tracer file, type
plot "tracer_out.csv" using 1:3 with linespoints
which can be shortened to
p "tracer_out.csv" u 1:3 w lp
The file can be saved from the export menu on the plot itself. Additional options for the set command can be used to define labels, titles, change how the axis labels look, e.g.
gnuplot> set title "O3 MMR"
gnuplot> set xlabel "timestep number"
gnuplot> set ylabel "mass mixing ratio /kg kg^{-1}"
gnuplot> set format y "%.2t*10^{%+03T}"
gnuplot> unset key
gnuplot> p 'tracer_out.csv' u 1:3 w lp
The ordering of the species in the tracer_out.csv can be seen by opening it in e.g. a simple spreadsheet program like Gnumeric, e.g.
gnumeric tracer_out.csv
The column number is given in the first line with the tracer name in the line below. You could also open the file in emacs and then M-x toggle-truncate-lines. An example of this header for the StratTrop chemistry with GLOMAP-mode aerosols is
# COL 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 # Timestep, O(3P), O3, N, NO, NO3, NO2, N2O5, HO2NO2, HONO2, H2O2, CH4, CO, HCHO, MeOOH, H, H2O, OH, HO2, Cl, Cl2O2, ClO, OClO, Br, BrO, BrCl, BrONO2, N2O, HCl, HOCl, HBr, HOBr, ClONO2, CFCl3, CF2Cl2, MeBr, HONO, C2H6, EtOOH, MeCHO, PAN, C3H8, n-PrOOH, i-PrOOH, EtCHO, Me2CO, MeCOCH2OOH, PPAN, MeONO2, C5H8, ISOOH, ISON, MACR, MACROOH, MPAN, HACET, MGLY, NALD, HCOOH, MeCO3H, MeCO2H, H2, MeOH, DMS, SO2, H2SO4, MSA, DMSO, NH3, CS2, COS, H2S, SO3, Monoterp, Sec_Org, Nuc_SOL_N, Nuc_SOL_SU, Ait_SOL_N, Ait_SOL_SU, Ait_SOL_BC, Ait_SOL_OM, Acc_SOL_N, Acc_SOL_SU, Acc_SOL_BC, Acc_SOL_OM, Acc_SOL_SS, Cor_SOL_N, Cor_SOL_SU, Cor_SOL_BC, Cor_SOL_OM, Cor_SOL_SS, Ait_INS_N, Ait_INS_BC, Ait_INS_OM, Nuc_SOL_OM, PASSIVE O3
The flux_out.csv file has a more complicated header as it also gives all the chemical reactants and products, e.g.
# Timestep, UKCA reaction fluxes (units = molecules.cm^-3.s^-1) # COL 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, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 215, 216, 217, 218, 219, 220, 221, 222, 223, 224, 225, 226, 227, 228, 229, 230, 231, 232, 233, 234, 235, 236, 237, 238, 239, 240, 241, 242, 243, 244, 245, 246, 247, 248, 249, 250, 251, 252, 253, 254, 255, 256, 257, 258, 259, 260, 261, 262, 263, 264, 265, 266, 267, 268, 269, 270, 271, 272, 273, 274, 275, 276, 277, 278, 279, 280, 281, 282, 283, 284, 285, 286, 287, 288, 289, 290, 291, 292, 293, 294, 295, 296, 297, 298, 299, 300, 301, 302, 303, 304, 305, 306, 307, 308, 309, 310 # PROD 1, Cl2O2, HO2NO2, PAN, PPAN, MPAN, N2O5, EtOOH, H2O2, HCHO, HCHO, HO2NO2, HONO2, MeCHO, MeCHO, MeOOH, N2O5, NO2, NO3, NO3, O2, O3, O3, PAN, HONO, EtCHO, Me2CO, n-PrOOH, i-PrOOH, MeCOCH2OOH, PPAN, MeONO2, ISOOH, ISON, MACR, MPAN, MACROOH, MACROOH, HACET, MGLY, NALD, MeCO3H, BrCl, BrO, BrONO2, BrONO2, O2, OClO, NO, HOBr, N2O, H2O, ClONO2, ClONO2, HCl, HOCl, Cl2O2, CFCl3, CF2Cl2, MeBr, CH4, CO2, HO2NO2, CS2, COS, H2SO4, SO3, Br, Br, Br, Br, Br, BrO, BrO, BrO, BrO, BrO, BrO, BrO, CF2Cl2, CFCl3, Cl, Cl, Cl, Cl, Cl, Cl, Cl, Cl, Cl, Cl, Cl, Cl, Cl, ClO, ClO, ClO, ClO, ClO, ClO, ClO, EtCO3, EtCO3, EtOO, EtOO, H, H, H, H, H, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, HO2, MeBr, MeBr, MeBr, MeCO3, MeCO3, MeCOCH2OO, MeCOCH2OO, MeOO, MeOO, MeOO, N, N, N, N2O5, NO, NO, NO, NO, NO, NO, NO2, NO2, NO3, NO3, NO3, NO3, NO3, NO3, NO3, O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(1D), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O(3P), O3, O3, O3, O3, O3, O3, O3, OClO, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, OH, i-PrOO, i-PrOO, n-PrOO, n-PrOO, CS2, CS2, DMS, DMS, DMSO, H2S, H2S, COS, COS, SO2, SO3, Monoterp, Monoterp, Monoterp, MeOO, MeOO, EtOO, EtOO, n-PrOO, n-PrOO, i-PrOO, i-PrOO, MeCO3, EtCO3, MeCOCH2OO, MeCOCH2OO, ISO2, MACRO2, MACRO2, HO2, O(3P), O(3P), O(3P), O(1D), BrO, ClO, ClO, H, HO2, HO2, OH, OH, OH, MeCO3, EtCO3, MACRO2, NO2, NO, SO2, DMS, DMS, ClONO2, ClONO2, HOCl, N2O5, N2O5, SO2, SO2, SO2 # PROD 2, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , Cl2O2, HCHO, HO2, O3, OClO, BrO, ClO, ClO, ClO, HO2, NO, OH, O(1D), O(1D), CH4, Cl2O2, ClONO2, H2, H2O2, HCHO, HO2, HO2, HOCl, MeOOH, NO3, O3, OClO, ClO, ClO, ClO, HO2, MeOO, NO, NO3, NO, NO3, NO, NO3, HO2, HO2, HO2, NO2, O3, EtCO3, EtCO3, EtOO, HO2, ISO2, MACRO2, MeCO3, MeCO3, MeCO3, MeCOCH2OO, MeOO, MeOO, NO, NO3, O3, i-PrOO, n-PrOO, Cl, O(1D), OH, NO, NO3, NO, NO3, NO, NO, NO3, NO, NO2, O2, H2O, ISO2, ISO2, MACRO2, MACRO2, NO3, O3, NO3, O3, Br, C5H8, EtCHO, HCHO, MGLY, Me2CO, MeCHO, CH4, CH4, CH4, CO2, H2, H2O, HBr, HBr, HCl, HCl, HCl, N2, N2O, N2O, O2, O3, O3, BrO, ClO, ClONO2, H2O2, HBr, HCl, HO2, HOCl, NO2, NO3, O3, OClO, OH, C5H8, C5H8, C5H8, MACR, MACR, MACR, MACR, NO, C2H6, C3H8, C3H8, C5H8, CH4, CO, ClO, ClO, ClONO2, EtCHO, EtOOH, EtOOH, H2, H2O2, HACET, HBr, HCHO, HCOOH, HCl, HO2, HO2NO2, HOCl, HONO, HONO2, ISON, ISOOH, MACR, MACR, MACROOH, MGLY, MPAN, Me2CO, Me2CO, MeCHO, MeCO2H, MeCO3H, MeCOCH2OOH, MeCOCH2OOH, MeOH, MeONO2, MeOOH, MeOOH, NALD, NO3, O3, OClO, OH, PAN, PPAN, i-PrOOH, i-PrOOH, n-PrOOH, n-PrOOH, NO, NO3, NO, NO3, O(3P), OH, OH, NO3, OH, O(3P), OH, O(3P), OH, O3, H2O, OH, O3, NO3, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, RO2, EtCO3, O2, NO, NO2, N2, NO2, ClO, NO2, O2, HO2, NO2, NO, NO2, OH, NO2, NO2, NO2, NO3, NO, OH, OH, OH, H2O, HCl, HCl, H2O, HCl, H2O2, O3, O3 # REACT 1, ClO, NO2, MeCO3, EtCO3, MACRO2, NO2, MeCHO, OH, HO2, H2, HO2, OH, MeOO, CH4, HO2, NO3, NO, NO, NO2, O(3P), O2, O2, MeCO3, OH, EtOO, MeCO3, EtCHO, Me2CO, MeCO3, EtCO3, HO2, OH, NO2, MeCO3, MACRO2, OH, HACET, MeCO3, MeCO3, HCHO, MeOO, Br, Br, Br, BrO, O(3P), O(3P), N, OH, N2, OH, Cl, ClO, H, OH, Cl, Cl, Cl, Br, MeOO, CO, OH, COS, CO, SO3, SO2, BrCl, HBr, HBr, BrO, BrO, Br, Br, Br, BrCl, HOBr, Br, Br, Cl, Cl, HCl, Cl, Cl, HCl, HCl, HCl, ClO, HCl, Cl, HCl, ClO, ClO, ClO, Cl, Cl, Cl, HOCl, Cl, Cl, Cl, EtOO, EtOO, MeCHO, MeCHO, H2, O(3P), OH, OH, OH, O2, O3, EtOOH, H2O2, ISOOH, MACROOH, MeCO2H, MeCO3H, OH, MeCOCH2OOH, HCHO, MeOOH, OH, OH, OH, i-PrOOH, n-PrOOH, Br, Br, Br, MeOO, MeOO, MeCO3, MeCO3, HO2, MeONO2, HO2, N2, N2O, NO, HONO2, ISON, NO2, MGLY, NO2, NO2, NO2, NO, NO3, BrO, ISON, HONO2, HONO2, MeCO3, HONO2, HONO2, HCHO, HCHO, OH, O(3P), OH, OH, HBr, OH, H, O(3P), OH, O(3P), N2, NO, O(3P), O2, O2, O2, Cl, ClO, OH, OH, OH, OH, OH, NO, O2, O2, O2, O2, HO2, MACR, MeOO, MGLY, MGLY, OH, OH, NO2, H2O, i-PrOO, n-PrOO, ISO2, H2O, H, HCl, HO2, HOCl, H2O, H2O, H2O, H2O, H2O, MGLY, H2O, H2O, CO2, H2O, H2O, H2O, ClO, H2O, H2O, HACET, MACR, MACRO2, MACRO2, MACRO2, MeCO3, HACET, H2O, H2O, H2O, MeOO, MeCO3, H2O, OH, HO2, HCHO, H2O, H2O, HCHO, HO2, HO2, HOCl, H2O, HCHO, MeCHO, Me2CO, i-PrOO, EtCHO, n-PrOO, Me2CO, Me2CO, EtCHO, EtCHO, CO, COS, SO2, SO2, SO2, OH, SO2, CO, CO2, SO3, H2SO4, Sec_Org, Sec_Org, Sec_Org, HO2, MeOH, HO2, MeCHO, HO2, EtCHO, HO2, Me2CO, MeCO2H, , HCHO, HACET, MACR, HACET, HO2, OH, O3, NO2, NO3, N2O, BrONO2, Cl2O2, ClONO2, HO2, H2O2, HO2NO2, HONO, HONO2, H2O2, PAN, PPAN, MPAN, N2O5, NO2, SO3, DMSO, SO2, HOCl, Cl, Cl, HONO2, Cl, , , # REACT 2, ClO, HO2, NO2, NO2, NO2, NO3, HO2, OH, HO2, CO, NO2, NO2, HO2, CO, HCHO, NO2, O(3P), O2, O(3P), O(3P), O(1D), O(3P), NO2, NO, HO2, MeOO, HO2, HO2, HCHO, NO2, HCHO, MACR, MACR, HCHO, NO2, HO2, CO, HCHO, CO, CO, OH, Cl, O(3P), NO3, NO2, O(1D), ClO, O(3P), Br, O(1D), H, NO3, NO2, Cl, Cl, Cl, Cl, Cl, H, H, O(3P), NO3, SO2, SO2, OH, O(3P), Cl, CO, O2, O2, ClO, Br, Cl, OClO, O2, O2, NO2, HO2, ClO, Cl, MeOO, Cl, Cl, H, HO2, CO, OH, O2, Cl, MeOO, NO2, O2, ClO, Cl, Cl, OClO, O2, HCHO, NO2, O2, CO2, CO2, HO2, HO2, O2, H2O, OH, NO, O2, , , , , , , O3, , MeOO, , , , NO2, NO2, O2, , , HCl, OH, H2O, CO2, CO2, HCHO, HCHO, HCHO, , HCHO, O(3P), O(3P), O(3P), HONO2, , MACR, HCHO, MeCO3, NO2, , NO2, , NO2, , EtCO3, HO2, CO, MeCOCH2OO, MeCO3, H2, HO2, MeOO, CO2, H, OH, O(3P), Br, ClO, HCl, Cl, N2, O2, NO, O2, O(3P), O2, Br, O2, NO3, HO2, Br, Cl, O2, ClO, O2, NO2, O2, ClO, H, OH, HCHO, HCOOH, HCOOH, HCOOH, MeCO3, MeCO3, ClO, EtOO, H2O, H2O, , MeOO, CO2, O2, Cl, NO3, EtCO3, EtOO, MeCHO, H, HO2, HO2, Br, HO2, H2O, Cl, , NO2, H2O, NO2, NO3, NALD, OH, , , , CO, NO2, MeCOCH2OO, MeCOCH2OO, MeCO3, , , MeCOCH2OO, MGLY, HCHO, NO2, HCHO, MeOO, CO, NO2, O2, O2, O(3P), NO2, NO2, OH, H2O, H2O, H2O, HO2, HO2, HO2, HO2, SO2, SO2, , , MSA, SO2, H2O, SO2, SO2, , H2O, , , , HCHO, HCHO, MeCHO, , EtCHO, , Me2CO, , MeOO, EtOO, MeCO3, MGLY, HCHO, MGLY, , EtOO, , , , , , , , , O2, , , , , , , , , NO2, HO2, HO2, MeOO, HONO2, Cl, Cl, HONO2, NO2, , , # REACT 3, , , , , , , OH, , CO, , , , CO, , OH, , , , , , , , , , CO, , OH, OH, OH, , NO2, HCHO, HCHO, CO, , OH, MGLY, HO2, HO2, NO2, , , , , , , , , , , , , , , , O2, Cl, , , , , , , , H, , O2, HO2, , , , O2, O2, , , , , , , ClO, , Cl, NO3, , , HO2, , , OH, , , , , O2, O2, , , HO2, , NO2, NO2, NO2, NO2, NO2, , , , , , , , , , , , , , , , , , , , , , , , , , NO2, NO2, NO2, NO2, NO2, , NO2, , , , , , HCHO, HO2, HACET, , , O2, , , , , CO, HONO2, , , , HO2, , , , , , , , , , , , , , O(3P), , , , , , , , , , , , , , , , MACRO2, CO, HO2, HO2, , , , , , , , , , , , , , , OH, , , , , CO, H, , , O2, , , , , , , , , , , , , , , , , , , H2O, OH, , NO2, , , , , H2O, H2O, , , OH, , NO2, NO2, NO2, NO2, SO2, , , , , OH, , , , , , , , , , , , , , , , , , , , , HO2, HCHO, , CO2, , , , , , , , , , , , , , , , , , , , , , , HONO2, H2O, , HONO2, , , # REACT 4, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , HO2, HO2, HO2, , HO2, HCHO, , , HO2, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , HO2, , CO, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , MeCO3, H2O2, CO, CO, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , O(3P), , , , , , , , , , , , , , , , , , , , , , CO, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , ,
Jupyter Notebook
Ozone mass-mixing ration
Flux through the OH+ClO->HO2+Cl reaction
An example Jupyter Notebook which plots both tracers and chemical reaction fluxes can be found in
$HOME/Tutorials/UMvn13.0/notebooks/Tutorial01.ipynb
You can try changing the chemical species and reaction flux selected.
Checklist
- ☐ List suites using rosie go
- ☐ Copy suites using the right-click menu
- ☐ Run suites using the play button
- ☐ Plot output using gnuplot
UKCA Chemistry and Aerosol Tutorials at UMvn13.0
Written by Luke Abraham 2022
