PHY410

Software for UB's PHY410 class

This software package is to demonstrate the example code in the UB Computational Physics class, PHY 410, developed by Prof. Richard Gonsalves (and updated by Prof. Salvatore Rappoccio). This also includes software from the following sources :

• Matrix class (Bjarne Stroustrup, Texas A&M University)
• FFT implementations (http://rosettacode.org/wiki/Fast_Fourier_transform)
• Numerical Recipes in C (http://apps.nrbook.com/c/index.html)

• ---> Also some translated to python
  

• http://pistol.googlecode.com/svn-history/r3/Pistol/ConjGrad.py

• ---> this translates NR routine "mnbrak" to python
  

• Numerical Methods for Physics (Alejandro L. Garcia) (http://www.algarcia.org/nummeth/Programs2E.html)

The examples are typically provided in both python and C++ with a few exceptions. These have been tested with :

• Mac OS 10.8 : python 2.7.2 and GCC 4.7.3_0. Mac OS 10.10: python 2.7.9 and clang-700.1.81 (g++ points to this now)
• Windows 7 + cygwin : python 2.7.5 and GCC 4.8.1
• Ubuntu 12.04 LTS : python 2.7.3 and GCC 4.6.3

Additional installation instructions :

• Mac OS >= 10.8 :

  Install XCode from the App Store, enable command line tools (xcode-select --install)

• Windows 7 + cygwin

  During installation, change the "Interpreters" and "Devel" installations from "Default" to "Install".

• Ubuntu 12.04 :

  Install g++ and make on the command line via: sudo apt-get install build-essential

The examples include several instances where matplotlib is used. There are also hooks to use gnuplot. Both are often commented out. To get started with these, try these links :

Docker:

• Install Docker: https://docs.docker.com/install/ (execute once)
• Open your Terminal application.
• Find a preferred directory somewhere and make a "results" folder:

mkdir results

• Get the code for PHY410:

git clone https://github.com/rappoccio/PHY410.git
cd PHY410

• Execute docker image (execute every time you log in):
  • With jupyter:./runDocker.sh srappoccio/phy410:latest
  • With terminal:./runDocker.sh srappoccio/phy410:latest 1
• Your homework should go into the "results" directory you already created or it will be overwritten when the Docker image quits. I have disabled write access to that directory, but it isn't 100% foolproof so you will be able to shoot themselves in the foot unless you follow directions.

scipy and matplotlib :

Mac OS X: Download :

http://fonnesbeck.github.io/ScipySuperpack/

Windows and cygwin :

Via wget :

wget http://peak.telecommunity.com/dist/ez_setup.py

python ez_setup.py

easy_install -U scipy

Ubuntu :

• With apt-get:

sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose

Make sure it installs version 0.13.0. If it doesn't, use the tarball :

• With tarball :

wget https://pypi.python.org/packages/source/s/scipy/scipy-0.13.0.tar.gz

tar -zxvf scipy-0.13.0.tar.gz

cd scipy-0.13.0

sudo python setuppy.py install

gnuplot :

All :

http://gnuplot.sourceforge.net

To Compile and Run

Compile the library

cd PHY410
source setup.csh (or setup.sh for bash)
cd cpt
make

Compile and run the executables

cd $CPT_PATH/LectureXXX
make
./program_name 

Example:

cd $CPT_PATH/Lecture14
make
./wheatstone

"Advanced" topics

If you want to make new executable file called "filename.cpp", edit the Makefile:

• add your new exe name "filename" to the "all" target list
• make a "rule" for your "filename" executable
• add your new exe name "filename" to the "clean" string Example:

filename: filename.cpp
	$(CC) $^  $(LIBS) -o filename

If you broke something, to revert your git repository:

git checkout -- . 

If you want to compile EVERYTHING at once, go to PHY410 directory, do NOT cd to any Lecture, and type "make"

cd PHY410
source setup.csh (or setup.sh for bash)
make