xmipp3.protocols.protocol_movie_gain module

class xmipp3.protocols.protocol_movie_gain.XmippProtMovieGain(**args)

Bases: pwem.protocols.protocol_movies.ProtProcessMovies

Estimate the gain image of a camera, directly analyzing one of its movies.

createOutputStep()

doGainProcess(movieId)

estimateOrientationStep(movieDict)

getArgs(movieFn, movieId, extraArgs='')

getBestGain()

getCurrentGain(movieId)

getFinalGain()

getInputGain()

match_orientation(exp_gain, est_gain)

Calculates the correct orientation of the experimental gain image with respect to the estimated Input: 2 Xmipp Images

normalizeGainStep()

xmipp3.protocols.protocol_movie_gain.applyTransform(imag_array, M, shape)

Apply a transformation(M) to a np array(imag) and return it in a given shape

xmipp3.protocols.protocol_movie_gain.array_zeros_to_median(a, thres=0.01, depth=1)

Return an array, replacing the zeros (values under a threshold) with the median of its surrounding values (with a depth)

xmipp3.protocols.protocol_movie_gain.arrays_correlation_FT(ar1, ar2_ft_conj, normalize=True)

Return the correlation matrix of an array and the FT_conjugate of a second array using the fourier transform

xmipp3.protocols.protocol_movie_gain.invert_array(gain, thres=0.01, depth=1)

Return the inverted array by first converting the values under the threshold to the median of the surrounding

xmipp3.protocols.protocol_movie_gain.rotation(imag, angle, shape, P)

Rotate a np.array and return also the transformation matrix #imag: np.array #angle: angle in degrees #shape: output shape #P: transform matrix (further transformation in addition to the rotation)

xmipp3.protocols.protocol_movie_gain.translation_correction(Loc, shape)

Return translation corrections given the max/min Location and the image shape