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from niprov.dependencies import Dependencies
import webbrowser
class Polaroid(object):
def __init__(self, dependencies):
pass
def saveSnapshot(self, data, to):
"""Plot an overview of the image and store it.
Args:
data (numpy.ndarray): Array of 2, 3 or 4 dimensions with image data.
to (:class:`.PictureCache`): Service that provides a file-like
handle to save the plotted picture to.
"""
def view(img, dependencies=Dependencies()):
libs = dependencies.getLibraries()
plt = libs.pyplot
nibabel = libs.nibabel
data = nibabel.load(img.path).get_data()
## 3D
ndims = len(data.shape)
sliceOrder = [1, 0, 2]
fig, axs = plt.subplots(nrows=1, ncols=ndims)
for d in range(ndims):
slicing = [slice(None)]*ndims
slicing[sliceOrder[d]] = int(data.shape[d]/2)
axs[d].matshow(data[slicing].T, origin='lower',
cmap = plt.get_cmap('gray'), vmin = 0, vmax = data.max())
axs[d].locator_params(nbins=3)
axs[d].tick_params(axis='both', which='major', labelsize=8)
plt.tight_layout()
fname = 'myplot.png'
plt.savefig(fname)
webbrowser.open(fname)
ilogue /
niprov
