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Handle special HLAType format in crossmatch API #1188

Merged
merged 41 commits into from
May 25, 2023
Merged

Handle special HLAType format in crossmatch API #1188

merged 41 commits into from
May 25, 2023

Commits on May 24, 2023

  1. Update crossmatch swagger for special HLATyping format.

    @abragtim @kubantjan
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  2. Update examples + display code.

    @abragtim @kubantjan
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  3. Update tests for general cases.

    @abragtim @kubantjan
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  4. Add first test for assumed HLA Type

    @abragtim @kubantjan
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  5. Update swagger.

    @abragtim @kubantjan
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  6. Update swagger back.

    @abragtim @kubantjan
    abragtim authored and kubantjan committed May 24, 2023
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  7. Update crossmatch api with HLA dataclasses.

    @abragtim @kubantjan
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  8. Add validation for assumed HLA Type.

    @abragtim @kubantjan
    abragtim authored and kubantjan committed May 24, 2023
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  9. Implement split crossmatch for assumed + summary antibody + display h… 

    …la code.
    @abragtim @kubantjan
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  10. Solve conflicts.

    @abragtim @kubantjan
    abragtim authored and kubantjan committed May 24, 2023
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  11. Simplify crossmatch validation for double antibodies.

    @abragtim @kubantjan
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  12. Fix, that HLA type could not be empty in AntibodyMatchForHLAType.

    @abragtim @kubantjan
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  13. Simplify booleans for lists.

    @abragtim @kubantjan
    abragtim authored and kubantjan committed May 24, 2023
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  14. Implement and add test for summary.

    @abragtim @kubantjan
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  15. Change order in for loops to find all hla types.

    @abragtim @kubantjan
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  16. Add test case: multiple matched antibodies for one hla type.

    @abragtim @kubantjan
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  17. Fix random generation in test for expected assumed hla type.

    @abragtim @kubantjan
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  18. Use self-implemented __init__ instead empty setter.

    @abragtim @kubantjan
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  19. Generate swagger file.

    @abragtim @kubantjan
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  20. Don't convert in low res just in distribution.

    @abragtim @kubantjan
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  21. Refactor __is_hla_type_in_high_res 

    Co-authored-by: Jakub Monhart <monhart.jakub@gmail.com>
    @abragtim @jakubmonhart @kubantjan
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  22. Fix true/false -> True/False.

    @abragtim @kubantjan
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  23. Rename: is_hla_type_assumed_in_low_res -> is_hla_type_uniquely_define… 

    …d_in_low_res.
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  24. Small fix for test.

    @abragtim @kubantjan
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  25. Add comment for fancy approach to get unique list.

    @abragtim @kubantjan
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  26. Add test for crossmatch with ultra high res codes.

    @abragtim @kubantjan
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  27. Rename hla_type -> hla_types.

    @abragtim @kubantjan
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  28. Fix bug: undecidable instead high res.

    @abragtim @kubantjan
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  29. Update tests (comments and more cases). 

    Fix some tests.
    @abragtim @kubantjan
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  30. Replace example for crossmatch API on correct one. 

    Replace example for crossmatch API on correct one.
    @abragtim @kubantjan
    abragtim authored and kubantjan committed May 24, 2023
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  31. Allow non unique matches in the list.

    @abragtim @kubantjan
    abragtim authored and kubantjan committed May 24, 2023
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  32. Add TODO for the new issue 1204.

    @abragtim @kubantjan
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  33. Stop mute AntibodyMatchForHLAType, so compute and then create + refac… 

    …toring.
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  34. Add typing.

    @abragtim @kubantjan
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  35. Use just assumed hla type and potential hla type in two different mea… 

    …nings.

Describe new terms in comments.
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  36. Add test for assumed HLA type from supportive antibodies.

    @abragtim @kubantjan
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  37. Add assumed HLA type from supportive antibodies.

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  38. Solve potential HLA typing for all antibodies, not just crossmatched. 

    + small fix.
    @abragtim @kubantjan
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  39. Add some CS fixes.

    @abragtim @kubantjan
    abragtim authored and kubantjan committed May 24, 2023
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Commits on May 25, 2023

  1. make pull request

    @kristinagalik @abragtim
    kristinagalik authored and abragtim committed May 25, 2023
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  2. Refactor: don't use solve potential phrase.

    @abragtim
    abragtim committed May 25, 2023
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