Python in Biophysics:

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Biskit: instructions for installing in Ubuntu
Change IFLAGS = -I$(PYTHON)/local/include/python$(VERSION)
to IFLAGS = -I$(PYTHON)/include/python$(VERSION)

Comment out CFLAGS = -Wall -w1 -O3 -tpp7 -vec_report0
Uncomment CFLAGS = -Wall -O3

python-biggles in Edgy-eft (maybe others) is broken. Download and compile it. Make sure to install gnuplot lib and libplot-dev. have to change makefile to refer to /usr/include instead of local.

INSTALLING surface racer:
download binary: http://monte.biochem.wisc.edu/~tsodikov/surface.html
copy files to ~/biskit/external/surface_racer_3/
change ~/biskit/external/defaults/surface_racer.dat
- change exe line to absolute path