xmipp3.protocols.protocol_tilt_analysis module

class xmipp3.protocols.protocol_tilt_analysis.XmippProtTiltAnalysis(**args)[source]

Bases: ProtMicrographs

Estimate the tilt of a micrograph, by analyzing the PSD correlations of different segments of the image.

PARALLEL_BATCH_SIZE = 8

calculateTiltCorrelationStep(mic)[source]

createOutputStep()[source]

getInputMicrographs()[source]

static getPSDs(micFolder, ID)[source]: Return the Mic folder where find the PSDs in the tmp folder.

getWindowSize()[source]: Function to get the window size, automatically or the one set by the user.

initializeStep()[source]

processMicrographListStep(micIds)[source]

xmipp3.protocols.protocol_tilt_analysis.applyTransform(imag_array, M, shape)[source]: Apply a transformation(M) to a np array(imag) and return it in a given shape

xmipp3.protocols.protocol_tilt_analysis.computeStats(correlations)[source]

xmipp3.protocols.protocol_tilt_analysis.rotation(imag, angle, shape, P)[source]: 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_tilt_analysis.setAttribute(obj, label, value)[source]

xmipp3.protocols.protocol_tilt_analysis.window_coordinates2D(x, y, windStep)[source]