U Ph<@sddlmZddlZddlmZddlZddlmZddlm Z ddl m Z ddl m Z ddlmZmZmZed \ZZed d Gd d d e ZdS) ) annotationsN)Sequence)ndarray)PathLike) ImageReader)is_supported_format) FastMRIKeysoptional_import require_pkgh5py)pkg_namec@sPeZdZdZdddddZdddd d Zdd d d dZddd ddZdS) FastMRIReaderam Load fastMRI files with '.h5' suffix. fastMRI files, when loaded with "h5py", are HDF5 dictionary-like datasets. The keys are: - kspace: contains the fully-sampled kspace - reconstruction_rss: contains the root sum of squares of ifft of kspace. This is the ground-truth image. It also has several attributes with the following keys: - acquisition (str): acquisition mode of the data (e.g., AXT2 denotes T2 brain MRI scans) - max (float): dynamic range of the data - norm (float): norm of the kspace - patient_id (str): the patient's id whose measurements were recorded zSequence[PathLike] | PathLikebool)filenamereturncCsdg}tot||S)z Verify whether the specified file format is supported by h5py reader. Args: filename: file name z.h5)has_h5pyr)selfrsuffixesr]/home/dell461/cl/sdc2/HISourceFinder-master-l/src/monai/apps/reconstruction/fastmri_reader.py verify_suffix.szFastMRIReader.verify_suffixdict)datarc sxt|ttfr|d}t|dDtfddDfddjDtjt j |fg}W5QRX |S)z Read data from specified h5 file. Note that the returned object is a dictionary. Args: data: file name to read. rrcsg|]}||dfqS)rr.0keyfrr Fsz&FastMRIReader.read..csg|]}|j|fqSr)attrsrrrrrGs) isinstancetuplelistr Filerr rFILENAMEospathbasenameclose)rrdatrrrread8szFastMRIReader.readztuple[ndarray, dict])r*rcCs^||}t|tj}tj|krDtt|tjddn t|j |tj<||fS)a Extract data array and metadata from the loaded data and return them. This function returns two objects, first is numpy array of image data, second is dict of metadata. Args: dat: a dictionary loaded from an h5 file r)N.N) _get_meta_dictnparrayrKSPACEMASKkeys expand_dimszerosshape)rr*headerrrrrget_dataNs   zFastMRIReader.get_datacsfddtDS)z Get all the metadata of the loaded dict and return the meta dict. Args: dat: a dictionary object loaded from an h5 file. cs$i|]}|jkr|j|jqSr)value)rkr*rr fs z0FastMRIReader._get_meta_dict..)r)rr*rr9rr,_szFastMRIReader._get_meta_dictN)__name__ __module__ __qualname____doc__rr+r6r,rrrrr s  r ) __future__rr&collections.abcrnumpyr-r monai.configrmonai.data.image_readerrmonai.data.utilsr monai.utilsrr r r rr rrrr s