Solution to UKCA Chemistry and Aerosol Tutorial 3 Task 3.1
You were asked to
Output the instantaneous UKCA ozone field to the pb/UPB stream every 6 hours.
and were given the hint
You will need to make the changes to the STASH table first, and remember to use Verify Diagnostics and correct any warnings generated for the pb/UPB stream (61).
Add the new diagnostic to the STASH table
Go to Model Selection → Atmosphere → STASH → STASH. Specification of Diagnostic requirements.
You will need to add the following to the STASH table
34 1 O3 MASS MIXING RATIO AFTER TIMESTEP T6H DALLTH UPB Y + Y
- STASH section = 34
- STASH item = 1
- Time Profile = T6H
- Domain Profile = DALLTH
- Usage Profile = UPB
Verify the Diagnostics
Verifing the diagnostics (either Control-v or Diagnostics → Verify Diagnostics) gives
PP-Field Count Estimates Warning!!! You may exceed the maximum number of PP fields per file Estimated number of PP files to be written: 30600 fields in stream 61. Maximum allowed is 4096. 22835 fields in Climate mean Period_1 22835 fields in Climate mean Period_2 22835 fields in Climate mean Period_3 22835 fields in Climate mean Period_4 Maximum allowed is 4096 fields per Climate Mean Period.
You don't need to worry about the Climate Mean Period here, and in fact this job will run perfectly happily with this many fields. The line that is of more concern is
30600 fields in stream 61. Maximum allowed is 4096.
The value of 30600 comes from the fact that you are requesting 4x85 level variables for 90 days: 4x90x85=30600.
There are two ways to fix this. They both need you to go to Model Selection → Post Processing → Initialization and processing of mean and standard PP files.
Method 1: Increase the Override size
Increasing the value in the Override size column from 0 to 16000 for the PP1/PB/61 stream will remove this error. However, the Help text explicitly states here
Fieldsfiles usually can only contain 4096 fields. The recommended way to work around this restriction is to use periodic re-initialisation of the fieldsfiles. In the rare case that this is not a suitable option (e.g. for analysis time in a forecast) it is possible to extend the 4096 field restriction by overriding the default size. Be careful not to override the size by too much - large numbers of fieldsfile headers can be inefficient for both runtime and memory use and may cause problems with some small executables.
So the UMUI is explicitly suggesting that the frequency of output should be altered. This is Method 2.
Method 2: Change the output frequency
In this method we change the Period from 90 to 1, i.e. there will be a new file created every day.
We will use Method 2.
Now save, process, and submit your job. When the job has run the output in your archive directory will now contain 4 output files (*.p*):
$ ls *.p* xjllba.pa20051201 xjllba.pb20051201
Open the pb file. The variable list should look like
0 : 192 145 85 4 Stash code = 34001
Select this field and click the t radio button, which will list the times of each point in the field. This should give
2005/12/01:06.00 / 0.250000 2005/12/01:12.00 / 0.500000 2005/12/01:18.00 / 0.750000 2005/12/02:00.00 / 1.000000
Sample output from this job can be found in
on ARCHER, and in
There is a worked solution to this problem in the UMUI Tutorial experiment. This is job b: Tutorial: solution to Task 3.1 - outputting a diagnostic.
Written by Luke Abraham 2014