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co2syspy's Issues

Need more comprehensive testing harness

Need more comprehensive testing harness.

Right now I just have one basic smoke test for my specific use-case. Should look at coverage and be sure to write tests that at least cover all the major use-cases based on input into co2sys.CO2SYS().

Broadcasting and array input

Originally posted by @aholdsworth in #4 :

The code only seems to work for scalar inputs. I would have liked to use it for 3d fields, but it's not yet working for even the following simple test case. This is example 6 found here (https://github.com/jamesorr/CO2SYS-MATLAB/blob/master/notebooks/CO2SYS-Matlab_tutorial.ipynb) for the matlab version:


par1type = 1; # The first parameter supplied is of type "1", which is "alkalinity"
par1 = 2300; # value of the first parameter
par2type = 2; # The first parameter supplied is of type "1", which is "DIC"
par2 =np.arange(2000,2200,5) # value of the second parameter, which is a long vector of different DIC's!
sal = 35; # Salinity of the sample
tempin = 10; # Temperature at input conditions
presin = 0; # Pressure at input conditions
tempout = 0; # Temperature at output conditions - doesn't matter in this example
presout = 0; # Pressure at output conditions - doesn't matter in this example
sil = 50; # Concentration of silicate in the sample (in umol/kg)
po4 = 2; # Concentration of phosphate in the sample (in umol/kg)
pHscale = 1; # pH scale at which the input pH is reported ("1" means "Total Scale") - doesn't matter in this example
k1k2c = 4; # Choice of dissociation constants K1 and K2 ("4" means "Mehrbach refit")
kso4c = 1; # Choice of KSO4 ("1" means "Dickson")
print('par2', par2)

A =co2sys.CO2SYS(par1,par2,par1type,par2type,sal,tempin,tempout,presin,presout,sil,po4,pHscale,k1k2c,kso4c)

We've only written co2syspy for scalar input and broadcasting support would be nice.

In the meantime, as a quick fix, the simplest option would be to use something like a for-loop for the different input.

Need to update travis-ci OSX script

Right now our OSX travis-ci script is failing with error:


�[31mError:�[0m python 2.7.14 is already installed

To upgrade to 3.6.5, run `brew upgrade python`



travis_time:end:0487433c:start=1523325290285842000,finish=1523325379170473000,duration=88884631000
�[0K

�[31;1mThe command "if [[ "$JOB_OS" == "MacOSX" ]]; then brew update; brew install python3; fi" failed and exited with 1 during .�[0m



Your build has been stopped.

/Users/travis/.travis/job_stages: line 166: shell_session_update: command not found

I think this has something to do with homebrew now using python3 by default...

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