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Title: GitHub - usc-mrel/python-ismrmrd-server: Example client/server example for the streaming ISMRM Raw Data protocol

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X Title: GitHub - usc-mrel/python-ismrmrd-server: Example client/server example for the streaming ISMRM Raw Data protocol

Description: Example client/server example for the streaming ISMRM Raw Data protocol - usc-mrel/python-ismrmrd-server

Open Graph Description: Example client/server example for the streaming ISMRM Raw Data protocol - usc-mrel/python-ismrmrd-server

X Description: Example client/server example for the streaming ISMRM Raw Data protocol - usc-mrel/python-ismrmrd-server

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MIT licensehttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#-table-of-contents
Getting Startedhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#GettingStarted
Reconstruct a phantom raw data set using the MRD client/server pairhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#ReconstructaphantomrawdatasetusingtheMRDclientserverpair
Creating a custom reconstruction/analysis modulehttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Creatingacustomreconstructionanalysismodule
Adding a raw k-space filterhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Addingarawk-spacefilter
Adding an image processing filterhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Addinganimageprocessingfilter
Using raw data from an MRI scannerhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#UsingrawdatafromanMRIscanner
Using DICOM images as input datahttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#UsingDICOMimagesasinputdata
Setting up a working environment for the Python MRD client/serverhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#SettingupaworkingenvironmentforthePythonMRDclientserver
Setting up a devcontainer environmenthttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Settingupadevcontainerenvironment
Setting up a conda environmenthttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Settingupacondaenvironment
Setting up a Docker environmenthttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#SettingupaDockerenvironment
Spiral Reconstructionhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#SpiralReconstruction
Spiral View-Sharing Reconstructionhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#SpiralVS
Spiral Temporal Finite Difference (TFD) Reconstructionhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#SpiralTFD
Spiral Dual Temporally Constrained Reconstructionhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#SpiralXDGRASP
Code designhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Codedesign
Saving incoming datahttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Savingincomingdata
Startup scriptshttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Startupscripts
Building a custom Docker imagehttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#CustomDockers
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#1-getting-started
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#11-reconstruct-a-phantom-raw-data-set-using-the-mrd-clientserver-pair
condahttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Settingupacondaenvironment
Dockerhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#SettingupaDockerenvironment
Docker container as the clienthttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Dockerclient
Docker containerhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Dockerserver
condahttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#Settingupacondaenvironment
mrd2gif.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/mrd2gif.py
https://www.hdfgroup.org/downloads/hdfview/https://www.hdfgroup.org/downloads/hdfview/
ismrmrd-python-toolshttps://github.com/ismrmrd/ismrmrd-python-tools
ISMRMRDhttps://github.com/ismrmrd/ismrmrd
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#12-creating-a-custom-reconstructionanalysis-module
client.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/client.py
invertcontrast.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.py
main.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/main.py
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#121-adding-a-raw-k-space-filter
invertcontrast.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.py
simplefft.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/simplefft.py
Hanning filterhttps://numpy.org/doc/stable/reference/generated/numpy.hanning.html
section where raw k-space data is already sorted into a Cartesian grid, just prior to Fourier transformhttps://github.com/usc-mrel/python-ismrmrd-server/blob/27454bd9f1a2c7fd3928bfa0767840b0d015d988/invertcontrast.py#L177
attempts to findhttps://github.com/usc-mrel/python-ismrmrd-server/blob/6684b4d17c0591e64b34bc06fdd06d78a2d8c659/server.py#L105
Start the serverhttps://github.com/usc-mrel/python-ismrmrd-server#ReconstructaphantomrawdatasetusingtheMRDclientserverpair
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#122-adding-an-image-processing-filter
invertcontrast.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.py
analyzeflow.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/analyzeflow.py
Pillowhttps://github.com/python-pillow/Pillow/
FIND_EDGEShttps://pythontic.com/image-processing/pillow/edge-detection
normalizedhttps://github.com/usc-mrel/python-ismrmrd-server/blob/6684b4d17c0591e64b34bc06fdd06d78a2d8c659/invertcontrast.py#L261
filteredhttps://github.com/usc-mrel/python-ismrmrd-server/blob/6684b4d17c0591e64b34bc06fdd06d78a2d8c659/invertcontrast.py#L267
attempts to findhttps://github.com/usc-mrel/python-ismrmrd-server/blob/6684b4d17c0591e64b34bc06fdd06d78a2d8c659/server.py#L105
Start the serverhttps://github.com/usc-mrel/python-ismrmrd-server#ReconstructaphantomrawdatasetusingtheMRDclientserverpair
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#13-using-raw-data-from-an-mri-scanner
siemens_to_ismrmrdhttps://github.com/ismrmrd/siemens_to_ismrmrd
ge_to_ismrmrdhttps://github.com/ismrmrd/ge_to_ismrmrd
philips_to_ismrmrdhttps://github.com/ismrmrd/philips_to_ismrmrd
bruker_to_ismrmrdhttps://github.com/ismrmrd/bruker_to_ismrmrd
Start the serverhttps://github.com/usc-mrel/python-ismrmrd-server#ReconstructaphantomrawdatasetusingtheMRDclientserverpair
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#14-using-dicom-images-as-input-data
dicom2mrd.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/dicom2mrd.py
mrd2dicom.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/mrd2dicom.py
Start the serverhttps://github.com/usc-mrel/python-ismrmrd-server#ReconstructaphantomrawdatasetusingtheMRDclientserverpair
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#2-setting-up-a-working-environment-for-the-python-mrd-clientserver
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#21-setting-up-a-devcontainer-environment
Development containers (devcontainers)https://code.visualstudio.com/docs/devcontainers/containers
Dev Containershttps://marketplace.visualstudio.com/items?itemName=ms-vscode-remote.remote-containers
GitHub Codespaceshttps://github.com/features/codespaces
doc/devcontainers.mdhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/doc/devcontainers.md
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#22-setting-up-a-conda-environment
Anacondahttps://www.anaconda.com/
Minicondahttps://docs.conda.io/en/latest/miniconda.html
Mambahttps://mamba.readthedocs.io/en/latest/
micromambahttps://mamba.readthedocs.io/en/latest/user_guide/micromamba.html
Githttps://git-scm.com/book/en/v2/Getting-Started-Installing-Git
micromambahttps://mamba.readthedocs.io/en/latest/installation/micromamba-installation.html
Minicondahttps://docs.conda.io/en/latest/miniconda.html
environment.ymlhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/environment.yml
environment_windows.ymlhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/environment_windows.yml
ismrmrd-python-toolshttps://github.com/ismrmrd/ismrmrd-python-tools
generate_cartesian_shepp_logan_datasethttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/generate_cartesian_shepp_logan_dataset.py
changed its terms of service in 2024https://www.anaconda.com/blog/update-on-anacondas-terms-of-service-for-academia-and-research
https://anaconda.org/conda-forgehttps://anaconda.org/conda-forge
mirror of conda-forge is hosted by https://prefix.devhttps://prefix.dev/blog/towards_a_vendor_lock_in_free_conda_experience
environment_windows.ymlhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/environment_windows.yml
line - conda-forge in the channels sectionhttps://github.com/kspaceKelvin/python-ismrmrd-server/blob/f28a2365a1fcca8e2366a4019de2b4ab1bdc53e4/environment_windows.yml#L3
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#23-setting-up-a-docker-environment
Dockerhttps://www.docker.com/products/docker-desktop
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#3-spiral-reconstruction
RTSpiral PyPulseqhttps://github.com/usc-mrel/rtspiral_pypulseq
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#31-spiral-view-sharing-reconstruction
SigPyhttps://github.com/mikgroup/sigpy
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#32-spiral-temporal-finite-difference-tfd-reconstruction
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#33--spiral-dual-temporally-constrained-reconstruction
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#4-code-design
main.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/main.py
server.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/server.py
connection.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/connection.py
MRD documentationhttps://ismrmrd.readthedocs.io/en/latest/mrd_messages.html
constants.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/constants.py
mrdhelper.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/mrdhelper.py
client.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/client.py
generate_cartesian_shepp_logan_dataset.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/generate_cartesian_shepp_logan_dataset.py
ismrmrd-python-toolshttps://github.com/ismrmrd/ismrmrd-python-tools
dicom2mrd.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/dicom2mrd.py
mrd2dicom.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/mrd2dicom.py
mrd2gif.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/mrd2gif.py
invertcontrast.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.py
simplefft.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/simplefft.py
analyzeflow.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/analyzeflow.py
report.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/report.py
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#31-additional-json-config
client.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/client.py
invertcontrast.jsonhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.json
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#5-saving-incoming-data
start-fire-python-server-with-data-storage.shhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/start-fire-python-server-with-data-storage.sh
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#6-startup-scripts
start-fire-python-server.shhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/start-fire-python-server.sh
sync-code-and-start-fire-python-server.shhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/sync-code-and-start-fire-python-server.sh
start-fire-python-server.shhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/start-fire-python-server.sh
start-fire-python-server-with-data-storage.shhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/start-fire-python-server-with-data-storage.sh
start-fire-python-server.shhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/start-fire-python-server.sh
https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#7-building-a-custom-docker-image
invertcontrast.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.py
invertcontrast.jsonhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.json
customhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/custom
filter.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/custom/filter.py
invertcontrast.pyhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/invertcontrast.py
median_filter from the scipy packagehttps://docs.scipy.org/doc/scipy/reference/generated/scipy.ndimage.median_filter.html
invertcontrast.py from this commithttps://github.com/kspaceKelvin/python-ismrmrd-server/blob/3f52bf1504b1fed56b28d29b9fff560c5138e9f3/invertcontrast.py
filter.jsonhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/custom/filter.json
custom.dockerfilehttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/blob/master/custom/custom.dockerfile
Readme https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#readme-ov-file
MIT license https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server#MIT-1-ov-file
Please reload this pagehttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server
Activityhttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/activity
Custom propertieshttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/custom-properties
0 starshttps://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/stargazers
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Report repository https://patch-diff.githubusercontent.com/contact/report-content?content_url=https%3A%2F%2Fgithub.com%2Fusc-mrel%2Fpython-ismrmrd-server&report=usc-mrel+%28user%29
Releases 1https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/releases
Reconstruction for HAPTIC paper Latest Mar 14, 2025 https://patch-diff.githubusercontent.com/usc-mrel/python-ismrmrd-server/releases/tag/haptic-mrm
Packages 0https://patch-diff.githubusercontent.com/orgs/usc-mrel/packages?repo_name=python-ismrmrd-server
https://github.com
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