pip dev(deps-dev): update scirpy requirement from <=0.16.1 to <=0.17.0

[dependabot[bot]]

Updates the requirements on scirpy to permit the latest version.

Release notes

Sourced from scirpy's releases.

v0.17.0

See the release notes for more details.

Changelog

Sourced from scirpy's changelog.

v0.17.0

Additions

• Add "TCRdist" as new metric (#502)

Fixes

• Fix issue with detecting the number of available CPUs on MacOD (#518)

v0.16.1

Fixes

• Fix default value for n_jobs in ir.tl.ir_query that could lead to an error (#498).
• Update description of D50 diversity metric in documentation (#499).
• Fix clonotype_modularity not being able to store result in MuData in some cases (#504).
• Fix issue with creating sparse matrices from generators with the latest scipy version (#504)

v0.16.0

Backwards-incompatible changes

• Use the umi_count field instead of duplicate_count to store UMI counts. The field umi_count has been added to the AIRR Rearrangement standard in version 1.4 (#487). Use of duplicate_count for UMI counts is now discouraged. Scirpy will use umi_count in all scirpy.io functions. It will not change AIRR data that is read through scirpy.io.read_airr that still uses the duplicate_count column. Scirpy remains compatible with datasets that still use duplicate_count. You can update your dataset using

  adata.obsm["airr"]["umi_count"] = adata.obsm["airr"]["duplicate_count"]
  

Other

• the io.to_dandelion and io.from_dandelion interoperability functions now rely on the implementation provided by Dandelion itself (#483).

v0.15.0

Fixes

• Fix incompatibility with scipy 1.12 (#484)
• Fix incompatibility with adjustText 1.0 (#477)
• Reduce overall importtime by deferring the import of the airr package until it is actually used. (#473)

New features

• Speed up alignment distances by pre-filtering. There are two filtering strategies: A (lossless) length-based filter and a heuristic based on the expected penalty per mismatch. This is implemented in the FastAlignmentDistanceCalculator class which supersedes the AlignmentDistanceCalculator class, which is now deprecated. Using the "alignment" metric

... (truncated)

Commits

• 8dfe38e Fix #517 (#518)
• f8143aa [pre-commit.ci] pre-commit autoupdate (#515)
• 9ec5569 [pre-commit.ci] pre-commit autoupdate (#514)
• de0b522 [pre-commit.ci] pre-commit autoupdate (#513)
• f1b5d36 TCRdist performance improvements (#511)
• 48c8804 [pre-commit.ci] pre-commit autoupdate (#510)
• d1db848 tcrdist draft version implemented (#502)
• d63483c [pre-commit.ci] pre-commit autoupdate (#508)
• a172d30 Update CHANGELOG.md (#506)
• 2d8fe8b Fix set_obs throwing ValueError when Series aligns to MuData. (#504)
• Additional commits viewable in compare view

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