nf-core_modules/tests/modules/gatk4/markduplicatesspark/test.yml

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- name: gatk4 markduplicatesspark test_gatk4_markduplicates_spark
command: nextflow run ./tests/modules/gatk4/markduplicatesspark -entry test_gatk4_markduplicates_spark -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/markduplicatesspark/nextflow.config
tags:
- gatk4
- gatk4/markduplicatesspark
files:
- path: output/gatk4/test.bam
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md5sum: dc1a09ac6371aab7c50d1a554baa06d3
- name: gatk4 markduplicatesspark test_gatk4_markduplicates_spark_multiple_bams
command: nextflow run ./tests/modules/gatk4/markduplicatesspark -entry test_gatk4_markduplicates_spark_multiple_bams -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/markduplicatesspark/nextflow.config
tags:
- gatk4
- gatk4/markduplicatesspark
files:
- path: output/gatk4/test.bam
md5sum: 898cb0a6616897d8ada90bab53bf0837
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- name: gatk4 markduplicatesspark test_gatk4_markduplicates_spark_multiple_bams_metrics
command: nextflow run ./tests/modules/gatk4/markduplicatesspark -entry test_gatk4_markduplicates_spark_multiple_bams_metrics -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/markduplicatesspark/nextflow.config
tags:
- gatk4
- gatk4/markduplicatesspark
files:
- path: output/gatk4/test.bam
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md5sum: 898cb0a6616897d8ada90bab53bf0837
- path: output/gatk4/test.metrics
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contains: "[ ## METRICS CLASS org.broadinstitute.hellbender.utils.read.markduplicates.GATKDuplicationMetrics ]"