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Switch from sarepy to algotom #1149

Merged
merged 7 commits into from
Sep 24, 2021
Merged

Switch from sarepy to algotom #1149

merged 7 commits into from
Sep 24, 2021

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samtygier-stfc
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@samtygier-stfc samtygier-stfc commented Sep 21, 2021

Issue

Closes #1023

Description

The methods in Sarepy have been integrated into Algotom.

Testing & Acceptance Criteria

Docker tests will fail due to new dependency, conda one should pass.

If you create a new dev env
python3 ./setup.py create_dev_env
then tests should pass locally, and stripe removal operations should function

Documentation

Release notes

@samtygier-stfc samtygier-stfc changed the title 1023 algotom Switch from sarepy to algotom Sep 21, 2021
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This might be tricky. Building docs requires importing all the modules in mantidimaging. To get the old doc releases sphinx-multiversion checks out each old release, and builds those docs. So to build the docs we need an environment with that can import all the old versions of mantidimaging. Removing sarepy breaks this.

Quick solution is to leave sarepy in the environment. Long term we might need a way to have multiversioned docs without having to rebuild them each time.

Replaces sarepy remove_unresponsive_and_fluctuating_stripe
…filtering_sorting

These replace sarepy remove_stripe_based_filtering_sorting and
remove_stripe_based_2d_filtering_sorting.

Note that sort is now an flag argument, rather than a seperate function.
Replaces sarepy remove_stripe_based_sorting_fitting.

Note that sort is now an flag argument, rather than a seperate function.
Also there is no longer a sigma y option, only sigma with acts on x.
The default has changed, so match old behaviour.
@samtygier-stfc samtygier-stfc merged commit b547c6e into main Sep 24, 2021
@samtygier-stfc samtygier-stfc deleted the 1023-algotom branch September 24, 2021 14:59
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Switch from sarepy to algotom
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