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build(deps): bump the noodles group with 3 updates #274

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merged 3 commits into from
Nov 8, 2023

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@dependabot dependabot bot commented on behalf of github Nov 6, 2023

Bumps the noodles group with 3 updates: noodles-csi, noodles-tabix and noodles-vcf.

Updates noodles-csi from 0.25.1 to 0.26.0

Commits
  • 2684d93 Bump versions for noodles 0.56.0
  • d846c76 vcf/header/parser: Parse line from byte string
  • 45d91ca vcf/reader/header: Parse header line by line
  • 1f5fa65 vcf/header/parser: Add partial parser
  • 89b9acd csi/index/reference_sequence: Change bins to an ordered map
  • bc38d95 vcf/async/writer: Add a shutdown delegate
  • c3b4092 vcf/writer/builder: Add a compression method setter
  • f312c18 vcf/writer/builder: Add Builder::build_from_writer
  • edee012 cram/record/builder: Deprecate add methods
  • 3fe2301 cram/data_container/compression_header/preservation_map/substitution_matrix/b...
  • Additional commits viewable in compare view

Updates noodles-tabix from 0.31.0 to 0.32.0

Commits
  • 2684d93 Bump versions for noodles 0.56.0
  • d846c76 vcf/header/parser: Parse line from byte string
  • 45d91ca vcf/reader/header: Parse header line by line
  • 1f5fa65 vcf/header/parser: Add partial parser
  • 89b9acd csi/index/reference_sequence: Change bins to an ordered map
  • bc38d95 vcf/async/writer: Add a shutdown delegate
  • c3b4092 vcf/writer/builder: Add a compression method setter
  • f312c18 vcf/writer/builder: Add Builder::build_from_writer
  • edee012 cram/record/builder: Deprecate add methods
  • 3fe2301 cram/data_container/compression_header/preservation_map/substitution_matrix/b...
  • Additional commits viewable in compare view

Updates noodles-vcf from 0.43.0 to 0.45.0

Commits
  • bfb729e Bump versions for noodles 0.57.0
  • 11fe0dd vcf/changelog: Fix entry version
  • 9bdea56 vcf/reader/builder: Fix typo
  • d0ed888 bcf/reader/header: Discard header text padding
  • a87bf6d bam/reader/header: Handle optional NUL padding in SAM header text
  • 66ee6e7 bam/reader/header: Handle optional trailing NUL in SAM header text
  • a04da59 vcf/changelog: Fix entry category
  • 5fa37dd bcf/reader/header: Parse header line by line
  • 2688c15 vcf/header/parser: Return reference to inserted entry
  • b1ef0b4 vcf/header/parser/tests: Simplify duplicate map ID inputs
  • Additional commits viewable in compare view

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Bumps the noodles group with 3 updates: [noodles-csi](https://github.com/zaeleus/noodles), [noodles-tabix](https://github.com/zaeleus/noodles) and [noodles-vcf](https://github.com/zaeleus/noodles).


Updates `noodles-csi` from 0.25.1 to 0.26.0
- [Commits](zaeleus/noodles@noodles-csi-0.25.1...noodles-csi-0.26.0)

Updates `noodles-tabix` from 0.31.0 to 0.32.0
- [Commits](zaeleus/noodles@noodles-tabix-0.31.0...noodles-tabix-0.32.0)

Updates `noodles-vcf` from 0.43.0 to 0.45.0
- [Commits](zaeleus/noodles@noodles-vcf-0.43.0...noodles-vcf-0.45.0)

---
updated-dependencies:
- dependency-name: noodles-csi
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: noodles
- dependency-name: noodles-tabix
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: noodles
- dependency-name: noodles-vcf
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: noodles
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot dependabot bot added the dependencies Pull requests that update a dependency file label Nov 6, 2023
@github-actions github-actions bot enabled auto-merge (squash) November 6, 2023 15:54
@holtgrewe holtgrewe disabled auto-merge November 7, 2023 12:23
@holtgrewe holtgrewe enabled auto-merge (squash) November 7, 2023 12:24
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codecov bot commented Nov 8, 2023

Codecov Report

All modified and coverable lines are covered by tests ✅

Comparison is base (c1b3f2a) 71.10% compared to head (47ab9ed) 71.10%.
Report is 4 commits behind head on main.

Additional details and impacted files
@@           Coverage Diff           @@
##             main     #274   +/-   ##
=======================================
  Coverage   71.10%   71.10%           
=======================================
  Files          61       61           
  Lines        5790     5790           
=======================================
  Hits         4117     4117           
  Misses       1673     1673           
Files Coverage Δ
src/freqs/cli/import/reading.rs 86.17% <100.00%> (ø)
src/gnomad_nuclear/cli/import.rs 89.17% <100.00%> (ø)
src/gnomad_pbs/gnomad2.rs 93.80% <100.00%> (ø)
src/gnomad_pbs/gnomad3.rs 93.10% <100.00%> (ø)
src/gnomad_pbs/mtdna.rs 96.99% <100.00%> (ø)

☔ View full report in Codecov by Sentry.
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@holtgrewe holtgrewe merged commit 8c30958 into main Nov 8, 2023
9 checks passed
@holtgrewe holtgrewe deleted the dependabot/cargo/noodles-0d666b0442 branch November 8, 2023 08:39
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