Kevin Keraudren kevin-keraudren

KCL Medical Imaging CDT partnerships

UCL Medical Imaging CDT partnerships

Big players

Siemens (see Dorin Comaniciu's webpage)
GE
Philips
Microsoft Research Cambridge (see Antonio Crimisi's webpage)

Game changers

pip install RISE --user
jupyter-nbextension install rise --py --user
jupyter nbextension enable rise --user --py

from http://stackoverflow.com/questions/18770504/resize-ipython-notebook-output-window :

%%html
<style>

.input {

Notes for MacOSX

Anaconda installer:

  wget http://09c8d0b2229f813c1b93-c95ac804525aac4b6dba79b00b39d1d3.r79.cf1.rackcdn.com/Anaconda-2.1.0-MacOSX-x86_64.sh

When installing opencv:

conda install opencv

cmake -D OpenMP_CXX_FLAGS:STRING=-fopenmp -D OpenMP_C_FLAGS:STRING=-fopenmp -D CMAKE_CXX_COMPILER:FILEPATH=/usr/local/bin/clang-omp++ -D CMAKE_C_COMPILER:FILEPATH=/usr/local/bin/clang-omp ..

brew install graphviz
pip install theano pydot-ng keras h5py

Bleeding edge:

pip install git+https://github.com/fchollet/keras.git --upgrade

OpenMP support

git clone https://github.com/BioMedIA/MIRTK.git
cd MIRTK/
git submodule update --init
mkdir build
cd build/
cmake ..
ccmake ..

make -j 8

Cython documentation on parallelism

http://docs.cython.org/src/userguide/parallelism.html

Using OpenMP on Mac OS X

https://clang-omp.github.io/

	def to_pillow(img):
	# https://github.com/imageio/imageio/blob/master/imageio/plugins/pillowmulti.py#L371
	# img = np.concatenate((img,255*np.ones(list(img.shape[:2])+[1],dtype='uint8')),axis=-1)
	# img = Image.fromarray(img.astype('uint8'), 'RGBA')
	img = Image.fromarray(img.astype('uint8'), 'RGB')
	# a_channel = Image.new('L', img.size, 255) # 'L' 8-bit pixels, black and white
	# img.putalpha(a_channel)
	# p = img.getpalette()
	# img = img.convert('P', dither=None,colors=1024)
	# #img.putpalette