Commit 95c9898a authored by Arnau Montagud's avatar Arnau Montagud

Update README.md

parent a052138d
......@@ -173,8 +173,8 @@ Steps:
1. A help script named `script_3DtumorX.sh` is given in the root directory and to submit to SLURM, execute `$ sbatch script_3DtumorX.sh`. As in the previous example, 2 MPI processes with 24 threads each are spawned to execute 3DtumorX.
1. After the execution, there will be multiple .mat files created in the root directory. These .mat files can be plotted using the plotting_microenv_tumor.py Python script in the `./matlab/` directory to have a 2D plot of the 3Dal microenvironment.
1. The `plotting_microenv_tumor.py` script needs two arguments: the name of the mat file and the value of the cut in the z axis that is to be plotted. Note: The z value chosen need to be a value in the range of the example simulated, so you need to be knowledgeable of the range of values in the z dimension in the mat file. For instance, for the above example, z will have a range of [0.025, 3.975] with increments of 0.05.
1. The script can be run with: `python plotting_microenv.py "filename.mat" z_cut`
1. The PNG generated is named using both arguments "filename_z_cut.png"
1. The script can be run with: `python plotting_microenv.py "filename.mat" z_cut`.
1. The PNG generated is named using both arguments "filename_z_cut.png"
# Original BioFVM README file
```
......
Markdown is supported
0% or
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment