Commit 34525fb8 authored by Dany Dumont's avatar Dany Dumont

Minor changes

parent d9de79a3
......@@ -4,46 +4,43 @@
Welcome to the Phytoplankton Lagrangian Model 2014!
----------------------------------------------------
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:
must be done to fit with your machine. So, please read the following steps to
correctly start the model.
+ 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
# 1) COMPILATION:
+ compile the source codes using the command «make». The executable will be
+ 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/
+ You can also delete all object file and the executable by using the command
`make mrproper`.
3) USE THE MODEL WITH GOTM
# 2) USE THE MODEL
- 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/
+ 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/`.
4) USE BATCH MODE
# 3) USE THE MODEL WITH GOTM
- you can also run the model in batch mode. To do this, you must change the file
batch_bio_pbs.sh
+ 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
have fun
+ 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
For question, please contact me at mailto:baudryjeremy@gmail.com
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