This is a software package developed to pursue numerical calculations reported in the paper “Identification of parameters in systems biology” by Ugur G. Abdulla & Roby Poteau, submitted to Mathematical Biosciences.
Professor Ugur G. Abdulla,Ph.D.,Dr.Sci.
Department of Mathematical Sciences
Florida Institute of Technology
Melbourne, FL
Email:abdulla@fit.edu
Roby Poteau
Ph.D. Student in Operations Research
Department of Mathematical Sciences
Florida Institute of Technology
Email:rpoteau2010@my.fit.edu
I use GNU Make which is bundled in build-essential package
sudo apt-get install build-essential
git clone https://github.com/eigenteam/eigen-git-mirror.git eigen_source
mkdir eigen_build
cd eigen_build
cmake ../eigen_source
make install # may need sudo to run this
wget https://computing.llnl.gov/projects/sundials/download/sundials-4.1.0.tar.gz
tar zxf sundails-4.1.0.tar.gz
cd sundails-4.1.0
mkdir build/
cd build
cmake ..
make
make install
Make sure Eigen is installed. Download or clone the repository into a
folder and run make command in the project's root directory
(you can also use sudo make if the command doesn't work).
When you run make it will create executables in the bin folder from source files
in the examples folder. You can use them as a guide to apply this code to your
own examples.
When you create your own examples, just drop it into the examples
folder and run the make file in the root directory this will create an
executable which you can run from the bin folder.
To run the executable, you need libparamid in your system's library
# At QLOPT root directory
cd build
sudo cp libparamid.* /usr/lib/
sudo ldconfig
If you have any questions feel free to e-mail us at: abdulla@fit.edu; rpoteau2010@my.fit.edu
This project is licensed under the GNU General Public License v3.0 License - see the LICENSE.md file for details
I developed in a debian Linux environment.