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Added streamline filtering by primary orientation; other bundle definition fixes #898

Merged
merged 29 commits into from
Aug 27, 2022
Merged

Added streamline filtering by primary orientation; other bundle definition fixes #898

merged 29 commits into from
Aug 27, 2022

Commits on Aug 26, 2022

  1. Added streamline filtering by primary orientation

    @jyeatman @36000
    jyeatman authored and 36000 committed Aug 26, 2022
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  2. add into segmentation code; update segmentation code to be more strai… 

    …ghtforward about indices
    @36000
    36000 committed Aug 26, 2022
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  3. rearrange cleaning code, fix length cleaning bug

    @36000
    36000 committed Aug 26, 2022
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  4. add debugging to cleaning

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    36000 committed Aug 26, 2022
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  5. some bf, some logging rearranging, allow roimask to have both endpoin… 

    …t and include
    @36000
    36000 committed Aug 26, 2022
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  6. allow roi mask of include and endpoint

    @36000
    36000 committed Aug 26, 2022
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  7. minor fixes; allow 1 include + either start or end

    @36000
    36000 committed Aug 26, 2022
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  8. more flexible cmd_outputs

    @36000
    36000 committed Aug 26, 2022
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  9. add clobber alias

    @36000
    36000 committed Aug 26, 2022
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  10. seed/stop masks depend on tracking params

    @36000
    36000 committed Aug 26, 2022
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  11. simplify this section of code and ignore return_all

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    36000 committed Aug 26, 2022
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  12. add orientation cutoff

    @36000
    36000 committed Aug 26, 2022
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  13. up min sl length to 20

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    36000 committed Aug 26, 2022
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  14. orientation update

    @36000
    36000 committed Aug 26, 2022
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  15. example rough draft

    @36000
    36000 committed Aug 26, 2022
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  16. update tracking default lengths

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  17. vof, parc added into default bd

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  18. update example to new reality

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  19. this test needs the old streamline constraints

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    36000 committed Aug 26, 2022
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  20. convert example to .py

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  21. remake workflow after clobber

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    36000 committed Aug 26, 2022
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  22. threshold tweak

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  23. add docstring for vof example

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  24. update bundle dict test

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  25. update vof example and make them not default

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  26. typo

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    36000 committed Aug 26, 2022
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  27. clear up this TODO

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  28. this should be true

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  29. update docs, tests, etc

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    36000 committed Aug 26, 2022
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