HOW_TO_USE_THE_MODEL 1.58 KB
			
		
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			Welcome to the Phytoplankton Lagrangian Model 2014!
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The model has been designed to be very user-friendly, however some modifications
must be done to fit with your machine.
So, please read the following steps to correctly start the model.


	1) COMPILATION:

	-Ensure first that gfortran is installed on your machine. 
	-Ensure that the NETCDF FORTRAN libraries are installed on your machine.
	-Change the path for the NETCDF FORTRAN module and libraries in the makefile

	-compile the source codes using the command «make». The executable will be
	created in the parent directory.
	- you can also delete all object file and the executable by using the command «make mrproper»

	2) USE THE MODEL

	- The model use namelists in nml/ allowing to change some parameter values without recompiling 
 	the source code
	- outputs will be generated in the directory output/

	3) USE THE MODEL WITH GOTM

	- The model can call GOTM to produce a diffusivity profile. If you want to use this feature
	you have to change the value of the parameter «mix_state» in the namelist model_parameter
	- Before doing this, ensure that GOTM is installed on your machine and copy all the GOTM namelists
	you need in the directory gotm/. You should also create a symbolic link of the executable in the
	directory gotm/

	4) USE BATCH MODE

	- you can also run the model in batch mode. To do this, you must change the file
	batch_bio_pbs.sh


	have fun


	for question, please contact me at baudryjeremy@gmail.com