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hammerlab / guacamole

Spark-based variant calling, with experimental support for multi-sample somatic calling (including RNA) and local assembly
Apache License 2.0
84 stars 21 forks source link

shade breeze #586

Closed ryan-williams closed 8 years ago

ryan-williams commented 8 years ago

fixes #585

coveralls commented 8 years ago

Coverage Status

Coverage remained the same at 78.826% when pulling 67d1f349f313ed80161f49e2d51897c320b080c2 on ryan-williams:breeze into b39b458e0af192228466f6695e4e0ec2262314c7 on hammerlab:master.

arahuja commented 8 years ago

LGTM if you tested this out! Thanks!

ryan-williams commented 8 years ago

Yea, tested with:

spark-submit --driver-memory 10g target/guacamole-with-deps-0.0.1-SNAPSHOT.jar somatic-standard --normal-reads src/test/resources/synth1.normal.100k-200k.withmd.bam --tumor-reads src/test/resources/synth1.tumor.100k-200k.withmd.bam --reference /Users/ryan/data/refs/hg19.fasta --out /tmp/foo.vcf

Going to think about folding a test that includes spark-submit into our CI, but will do that separately.