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Update snakeyaml to 2.6#795

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scala-steward-projectglow[bot] wants to merge 1 commit into
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update/snakeyaml-2.6
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Update snakeyaml to 2.6#795
scala-steward-projectglow[bot] wants to merge 1 commit into
mainfrom
update/snakeyaml-2.6

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@scala-steward-projectglow scala-steward-projectglow Bot commented Mar 15, 2026

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About this PR

📦 Updates org.yaml:snakeyaml from 2.2 to 2.6

Usage

Please merge!

I'll automatically update this PR to resolve conflicts as long as you don't change it yourself.

If you'd like to skip this version, you can just close this PR. If you have any feedback, just mention me in the comments below.

Configure Scala Steward for your repository with a .scala-steward.conf file.

Have a fantastic day writing Scala!

🔍 Files still referring to the old version number

The following files still refer to the old version number (2.2).
You might want to review and update them manually.

build.sbt
core/src/test/scala/io/projectglow/tertiary/SampleQcExprsSuite.scala
core/src/test/scala/io/projectglow/vcf/VariantContextToInternalRowConverterSuite.scala
docs/source/_static/notebooks/0_setup_constants_glow.html
docs/source/_static/notebooks/2_setup_metadata.html
docs/source/_static/notebooks/etl/10_liftOver.html
docs/source/_static/notebooks/etl/1_simulate_covariates_phenotypes_offset.html
docs/source/_static/notebooks/etl/2_simulate_delta_pvcf.html
docs/source/_static/notebooks/etl/3_delta_to_vcf.html
docs/source/_static/notebooks/etl/6_explode_variant_dataframe.html
docs/source/_static/notebooks/etl/7_etl_gff_annotations.html
docs/source/_static/notebooks/etl/8_create_database_for_querying.html
docs/source/_static/notebooks/etl/9_query_variant_db.html
docs/source/_static/notebooks/etl/data/download_1000G.html
docs/source/_static/notebooks/etl/merge-vcf.html
docs/source/_static/notebooks/etl/normalizevariants.html
docs/source/_static/notebooks/etl/python/functions.html
docs/source/_static/notebooks/etl/sample-qc-demo.html
docs/source/_static/notebooks/etl/splitmultiallelics-transformer.html
docs/source/_static/notebooks/etl/variant-data.html
docs/source/_static/notebooks/etl/variant-qc-demo.html
docs/source/_static/notebooks/etl/vcf2delta.html
docs/source/_static/notebooks/tertiary/0_ingest_vcf2delta.html
docs/source/_static/notebooks/tertiary/1_quality_control.html
docs/source/_static/notebooks/tertiary/2_quantitative_glowgr.html
docs/source/_static/notebooks/tertiary/3_linear_gwas_glow.html
docs/source/_static/notebooks/tertiary/4_binary_glowgr.html
docs/source/_static/notebooks/tertiary/5_logistic_gwas_glow.html
docs/source/_static/notebooks/tertiary/8_pipeline_runs_comparison.html
docs/source/_static/notebooks/tertiary/binaryglowgr.html
docs/source/_static/notebooks/tertiary/glowgr.html
docs/source/_static/notebooks/tertiary/gwas-binary.html
docs/source/_static/notebooks/tertiary/gwas-quantitative.html
docs/source/_static/notebooks/tertiary/pandas-lmm.html
docs/source/_static/notebooks/tertiary/parallel_bcftools_filter.html
docs/source/_static/notebooks/tertiary/pipe-transformer-plink.html
docs/source/_static/notebooks/tertiary/pipe-transformer-vep.html
docs/source/_static/notebooks/tertiary/pipe-transformer.html
functions.yml
project/plugins.sbt
python/glow/functions.py
python/glow/gwas/tests/test_approx_firth.py
python/spark-4-environment.yml
test-data/1000G.phase3.broad.withGenotypes.chr20.10100000.vcf
test-data/1kg_sample with spaces.vcf
test-data/1kg_sample.vcf
test-data/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.vcf
test-data/NA12878_21_10002403.vcf
test-data/biallelic.CEUTrio.HiSeq.WGS.b37.NA12878.20.21.vcf
test-data/liftover/README
test-data/regenie/covariates.txt
test-data/regenie/example_3chr.sample
test-data/regenie/fit_bin_out_2.loco
test-data/regenie/phenotype.txt
test-data/regenie/test_bin_out_firth_Y1.regenie
test-data/regenie/test_bin_out_firth_Y2.regenie
test-data/regenie/test_bin_out_half_firth_Y1.regenie
test-data/regenie/test_bin_out_half_firth_Y2.regenie
test-data/regenie/test_bin_out_missing_firth_Y1.regenie
test-data/regenie/test_bin_out_missing_firth_Y2.regenie
test-data/regenie/test_lin_out_3chr_Y1.regenie
test-data/regenie/test_lin_out_3chr_Y2.regenie
test-data/regenie/test_lin_out_Y1.regenie
test-data/regenie/test_lin_out_Y2.regenie
test-data/regenie/test_lin_out_missing_Y1.regenie
test-data/regenie/test_lin_out_missing_Y2.regenie
test-data/wgr/logistic-regression/cov.csv
test-data/wgr/logistic-regression/test_map_irls_eqn.json
test-data/wgr/logistic-regression/test_reduce_irls_eqn.json
test-data/wgr/ridge-regression/X0.csv
test-data/wgr/ridge-regression/X1.csv
test-data/wgr/ridge-regression/X2.csv
test-data/wgr/ridge-regression/pts.csv
⚙ Adjust future updates

Add this to your .scala-steward.conf file to ignore future updates of this dependency:

updates.ignore = [ { groupId = "org.yaml", artifactId = "snakeyaml" } ]

Or, add this to slow down future updates of this dependency:

dependencyOverrides = [{
  pullRequests = { frequency = "30 days" },
  dependency = { groupId = "org.yaml", artifactId = "snakeyaml" }
}]
labels: library-update, old-version-remains, commit-count:1

@codecov

codecov Bot commented Mar 15, 2026

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Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 92.33%. Comparing base (7f5a94e) to head (bcd1066).

Additional details and impacted files
@@           Coverage Diff           @@
##             main     #795   +/-   ##
=======================================
  Coverage   92.33%   92.33%           
=======================================
  Files         132      132           
  Lines        7490     7490           
  Branches      606      606           
=======================================
  Hits         6916     6916           
  Misses        574      574           
Flag Coverage Δ
spark3 92.27% <ø> (ø)
spark4 92.29% <ø> (ø)

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