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4646 fastmri reader#4653

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wyli merged 67 commits intoProject-MONAI:devfrom
mersad95zd:4646-fastmri-reader
Jul 14, 2022
Merged

4646 fastmri reader#4653
wyli merged 67 commits intoProject-MONAI:devfrom
mersad95zd:4646-fastmri-reader

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@mersad95zd mersad95zd commented Jul 7, 2022

Fixes # .

Description

FastMRI reader for MONAI

Status

Work in progress

Types of changes

  • Non-breaking change (fix or new feature that would not break existing functionality).
  • Breaking change (fix or new feature that would cause existing functionality to change).
  • New tests added to cover the changes.
  • Integration tests passed locally by running ./runtests.sh -f -u --net --coverage.
  • Quick tests passed locally by running ./runtests.sh --quick --unittests --disttests.
  • In-line docstrings updated.
  • Documentation updated, tested make html command in the docs/ folder.

mersad95zd and others added 30 commits June 21, 2022 07:45
@mersad95zd
mri utils added
e0d20e5 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
fft_utils with its unit test added
aecedaa 
Signed-off-by: mersad95zd <[email protected]>
@Can-Zhao
Merge branch 'dev' into 00-mri-utils
41c93b0
@mersad95zd
fft_utils updated with monai data converter
1e0e39c 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch '00-mri-utils' of https://github.com/mersad95zd/MONAI in…
34b9da9 
…to 00-mri-utils
@mersad95zd
updated fft_util's docstring
a452ddc 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
apps.rst updated with fft_utils docstrings under the reconstruction m…
962f5f8 
…odule

Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
fft_utils docstring updated by adding dimension hins
829992c 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
fft_utils docstring updated by removing redundant output type
8536cd3 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
test_fft_utils.py moved to the tests folder
ae346ee 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch 'dev' into 00-mri-utils
41aa0c7
@mersad95zd
Merge branch 'dev' into 00-mri-utils
89f5c99
@mersad95zd
created fft_utils_t, the torch-only version of fft_utils
58086b3 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch '00-mri-utils' of https://github.com/mersad95zd/MONAI in…
9928973 
…to 00-mri-utils
@pre-commit-ci
[pre-commit.ci] auto fixes from pre-commit.com hooks
0c3f067 
for more information, see https://pre-commit.ci
@mersad95zd
fft_utils_t updated with type ignore for mypy
f48dc5a 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch '00-mri-utils' of https://github.com/mersad95zd/MONAI in…
e4773b4 
…to 00-mri-utils
@mersad95zd
docs/source/networks.rst updated with fft_utils_t
7a61979 
Signed-off-by: mersad95zd <[email protected]>
@pre-commit-ci
[pre-commit.ci] auto fixes from pre-commit.com hooks
4fd131f 
for more information, see https://pre-commit.ci
@mersad95zd
manual fix for fft_utils_t output data types
d4ce1fb 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch '00-mri-utils' of https://github.com/mersad95zd/MONAI in…
eb2b420 
…to 00-mri-utils
@mersad95zd
initial mri_transforms added under apps/reconstruction
4793885 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
PR1 files deleted
5b4e2ad 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch '4587-mri-transforms' of https://github.com/mersad95zd/M…
378e63e 
…ONAI into 4587-mri-transforms
@mersad95zd
with PR1 files to avoid error
a986290 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch '4587-mri-transforms' of https://github.com/mersad95zd/M…
3941149 
…ONAI into 4587-mri-transforms
@mersad95zd
PR1 included
b78b541 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
PR1 files finally removed
0be3d34 
Signed-off-by: mersad95zd <[email protected]>
@mersad95zd
Merge branch 'dev' into 4587-mri-transforms
cc42c3b
@mersad95zd
putting test_mri_transforms under apps for now
00c9a7c 
Signed-off-by: mersad95zd <[email protected]>
Can-Zhao
Can-Zhao reviewed Jul 11, 2022
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Can-Zhao
Can-Zhao reviewed Jul 11, 2022
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Can-Zhao
Can-Zhao reviewed Jul 11, 2022
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Can-Zhao commented Jul 11, 2022 •
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Could you resolve the package error by adding empty _init__.py to the folder?

@Can-Zhao Can-Zhao requested review from Nic-Ma and wyli July 12, 2022 19:36
Nic-Ma
Nic-Ma reviewed Jul 13, 2022
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mersad95zd and others added 6 commits July 13, 2022 14:55
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mersad95zd commented Jul 13, 2022

Thanks @Nic-Ma for your comments. Let me know if any further edits are needed, thanks!

@mersad95zd
fixed os.path.basename
d9a0d97 
Signed-off-by: mersad95zd <[email protected]>
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wyli commented Jul 14, 2022

/build

@wyli wyli enabled auto-merge (squash) July 14, 2022 05:11
@wyli wyli merged commit 1b73fef into Project-MONAI:dev Jul 14, 2022
@wyli wyli mentioned this pull request Jul 14, 2022
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@mersad95zd mersad95zd deleted the 4646-fastmri-reader branch July 14, 2022 06:45
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@Nic-Ma Nic-Ma Nic-Ma left review comments

@Can-Zhao Can-Zhao Can-Zhao approved these changes

@wyli wyli Awaiting requested review from wyli

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@mersad95zd @Can-Zhao @wyli @Nic-Ma