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Ran 07 Dec 2022 01:34AM UTC

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Committed 07 Dec 2022 01:22AM UTC coverage: 93.467% (+0.3%) from 93.129%

Job # MPLBACKEND=Agg

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push

travis-ci-com

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web-flow

Commit Message

Subset pixel channel averaging to remove bottleneck (#823)

* Initial implementation of pixel subsetting for channel averaging

* Polish up remaining tests that rely on count checks for channel averaging

* Add comment in compute_pixel_cluster_channel_avg documentation to clarify we're subsetting prior to averaging

* Update FOV subset logic

* Include check for fov_subset_proportion too low

* Final checks

* Fix test for remapping

* Increase FOV subset proportion

* Add random seed to pytest

* Update pixel channel average function to take max subset of FOVs and verify final number of pixel clusters included

* Add tests for subsetting more FOVs than there exist

* Add test to verify warning is thrown if final number of clusters is less than desired value

* Fix fov_subset_proportion to num_fovs_subset

* Clarify the warning message

* Initial commit of updated notebook process with summary file generation separated into separate functiona

* Purge new pipeline of bugs

* Define stubs of new functions

* Get tests for the broken up pixel clustering functions in

* Adjust existing meta cluster remapping tests so they don't include average summary file tests

* Documentation fix

* PYCODESTYLE

* Adjust test in notebooks_test.py for broken up pixel remapping function

* Update error message for lost clusters in channel subsetting

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angelolab / ark-analysis / 7326 / 1
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angelolab / ark-analysis / 7326 / 1
95%
master: 94%

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