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Disable pylint error and fix CI tests of new tifffile #4162

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Merged
Nic-Ma merged 8 commits into from
Apr 23, 2022
Merged

Disable pylint error and fix CI tests of new tifffile #4162

Nic-Ma merged 8 commits into from
Apr 23, 2022

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@Nic-Ma Nic-Ma commented Apr 23, 2022 •
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Description

Recently, due to some unclear reason, a pylint error randomly occurred in many CI tests of PRs, for example:
Catching an exception which doesn't inherit from Exception: ValidationError (catching-non-exception)
https://github.com/Project-MONAI/MONAI/runs/6075933692?check_suite_focus=true
This PR disabled the error as the workaround.

And also fixed the CI tests error related to the new tifffile released yesterday.

Status

Ready

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.

@Nic-Ma Nic-Ma requested a review from yiheng-wang-nv April 23, 2022 09:39
@Nic-Ma Nic-Ma changed the title [WIP] Disable pylint error for metadata verification Disable pylint error for metadata verification Apr 23, 2022
@Nic-Ma Nic-Ma marked this pull request as ready for review April 23, 2022 09:40
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Nic-Ma commented Apr 23, 2022

/build

@Nic-Ma Nic-Ma changed the title Disable pylint error for metadata verification Disable pylint error and fix CI tests of new tifffile Apr 23, 2022
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Nic-Ma commented Apr 23, 2022

/black

@Nic-Ma Nic-Ma mentioned this pull request Apr 23, 2022
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Nic-Ma commented Apr 23, 2022

/build

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Nic-Ma commented Apr 23, 2022

Mark: the root cause of Tifffile issue is that: In the new version, if not 3 channel data, it can't save as RGB anymore, if saving (16, 16) shape image as minisblack, it will change to (16, 16, 4) shape. So changed the test case to (16, 16, 2) shape.

Thanks.

@Nic-Ma Nic-Ma merged commit 710781b into Project-MONAI:dev Apr 23, 2022
bhashemian
bhashemian reviewed Apr 25, 2022
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wyli added a commit that referenced this pull request Apr 26, 2022
@wyli @yiheng-wang-nv
@pre-commit-ci @Nic-Ma @dongyang0122 @bhashemian @pxLi @ericspod
sync metatensor branch with dev (#4184)
724f73f 
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* Disable pylint error and fix CI tests of new tifffile (#4162)

* workaround

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* [DLMED] fix tifffile issue

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* Fixed an error in DiNTS model implementation and enabled act and norm layer options (#4157)

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* Split transform (#4153)

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* Update read and other methods

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* Update wsireader to support multi image and update docstrings

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* Make workaround for CuImage objects

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* Update a note about cucim

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* Add missing comma

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* fix bundle download test issue (#4169)

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* 4094 Enhance `ckpt_export` to save config files (#4159)

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* [DLMED] update according to comments

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* Move RGB/RGBA checks to base class (#4171)

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* [CICD] To support temp dgx runner (#4175)

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@Nic-Ma Nic-Ma mentioned this pull request Apr 28, 2022
Merged
1 task
Can-Zhao pushed a commit to Can-Zhao/MONAI that referenced this pull request May 10, 2022
@Nic-Ma @Can-Zhao
Disable pylint error and fix CI tests of new tifffile (Project-MONAI#…
df26fec 
…4162)

* workaround

Signed-off-by: Nic Ma <[email protected]>

* [DLMED] fix tifffile issue

Signed-off-by: Nic Ma <[email protected]>
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@bhashemian bhashemian bhashemian left review comments

@dongyang0122 dongyang0122 dongyang0122 approved these changes

@yiheng-wang-nv yiheng-wang-nv Awaiting requested review from yiheng-wang-nv

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