sparktk.dicom.ops.export_to_dcm module
# vim: set encoding=utf-8
# Copyright (c) 2016 Intel Corporation
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
def export_to_dcm(self, path):
"""
export_to_dcm creates .dcm image from dicom object with (metadata, imagedata) and saves to given path
Parameters
----------
:param path: (str) local/hdfs path
Examples
--------
>>> dicom_path = "../datasets/dicom_uncompressed"
>>> dicom = tc.dicom.import_dcm(dicom_path)
>>> dicom.metadata.count()
3
>>> dicom.pixeldata.count()
3
>>> dicom.metadata.inspect(truncate=30)
[#] id metadata
=======================================
[0] 0
AAE=
1.2.840.10008.5.1.4.1.1.4
1.3.6.1.4.1.14519.5.2.1.7308.2101.234736319276602547946349519685
...
#pixeldata property is sparktk frame
>>> pixeldata = dicom.pixeldata.take(1)
#dispaly
>>> pixeldata
[[0L, array([[ 0., 0., 0., ..., 0., 0., 0.],
[ 0., 125., 103., ..., 120., 213., 319.],
[ 0., 117., 94., ..., 135., 223., 325.],
...,
[ 0., 62., 21., ..., 896., 886., 854.],
[ 0., 63., 23., ..., 941., 872., 897.],
[ 0., 60., 30., ..., 951., 822., 906.]])]]
>>> dicom.export_to_dcm("dicom_export")
"""
if not isinstance(path, basestring):
raise TypeError("path must be a type of string, but found type as " % type(path))
def f(scala_dicom):
scala_dicom.exportToDcm(path)
self._call_scala(f)
Functions
def export_to_dcm(
self, path)
export_to_dcm creates .dcm image from dicom object with (metadata, imagedata) and saves to given path
Parameters:
path | (str): | local/hdfs path |
Examples:
>>> dicom_path = "../datasets/dicom_uncompressed"
>>> dicom = tc.dicom.import_dcm(dicom_path)
>>> dicom.metadata.count()
3
>>> dicom.pixeldata.count()
3
>>> dicom.metadata.inspect(truncate=30)
[#] id metadata
=======================================
[0] 0 <?xml version="1.0" encodin...
[1] 1 <?xml version="1.0" encodin...
[2] 2 <?xml version="1.0" encodin...
#Part of xml string looks as below
<?xml version="1.0" encoding="UTF-8"?>
<NativeDicomModel xml:space="preserve">
<DicomAttribute keyword="FileMetaInformationVersion" tag="00020001" vr="OB"><InlineBinary>AAE=</InlineBinary></DicomAttribute>
<DicomAttribute keyword="MediaStorageSOPClassUID" tag="00020002" vr="UI"><Value number="1">1.2.840.10008.5.1.4.1.1.4</Value></DicomAttribute>
<DicomAttribute keyword="MediaStorageSOPInstanceUID" tag="00020003" vr="UI"><Value number="1">1.3.6.1.4.1.14519.5.2.1.7308.2101.234736319276602547946349519685</Value></DicomAttribute>
...
#pixeldata property is sparktk frame
>>> pixeldata = dicom.pixeldata.take(1)
#dispaly
>>> pixeldata
[[0L, array([[ 0., 0., 0., ..., 0., 0., 0.],
[ 0., 125., 103., ..., 120., 213., 319.],
[ 0., 117., 94., ..., 135., 223., 325.],
...,
[ 0., 62., 21., ..., 896., 886., 854.],
[ 0., 63., 23., ..., 941., 872., 897.],
[ 0., 60., 30., ..., 951., 822., 906.]])]]
>>> dicom.export_to_dcm("dicom_export")
def export_to_dcm(self, path):
"""
export_to_dcm creates .dcm image from dicom object with (metadata, imagedata) and saves to given path
Parameters
----------
:param path: (str) local/hdfs path
Examples
--------
>>> dicom_path = "../datasets/dicom_uncompressed"
>>> dicom = tc.dicom.import_dcm(dicom_path)
>>> dicom.metadata.count()
3
>>> dicom.pixeldata.count()
3
>>> dicom.metadata.inspect(truncate=30)
[#] id metadata
=======================================
[0] 0
AAE=
1.2.840.10008.5.1.4.1.1.4
1.3.6.1.4.1.14519.5.2.1.7308.2101.234736319276602547946349519685
...
#pixeldata property is sparktk frame
>>> pixeldata = dicom.pixeldata.take(1)
#dispaly
>>> pixeldata
[[0L, array([[ 0., 0., 0., ..., 0., 0., 0.],
[ 0., 125., 103., ..., 120., 213., 319.],
[ 0., 117., 94., ..., 135., 223., 325.],
...,
[ 0., 62., 21., ..., 896., 886., 854.],
[ 0., 63., 23., ..., 941., 872., 897.],
[ 0., 60., 30., ..., 951., 822., 906.]])]]
>>> dicom.export_to_dcm("dicom_export")
"""
if not isinstance(path, basestring):
raise TypeError("path must be a type of string, but found type as " % type(path))
def f(scala_dicom):
scala_dicom.exportToDcm(path)
self._call_scala(f)