mirror of
https://github.com/MillironX/nf-core_modules.git
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31 lines
1.8 KiB
YAML
31 lines
1.8 KiB
YAML
- name: gatk4 markduplicatesspark test_gatk4_markduplicates_spark
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command: nextflow run ./tests/modules/gatk4/markduplicatesspark -entry test_gatk4_markduplicates_spark -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/markduplicatesspark/nextflow.config
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tags:
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- gatk4
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- gatk4/markduplicatesspark
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files:
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- path: output/gatk4/test.bam
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md5sum: dc1a09ac6371aab7c50d1a554baa06d3
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- name: gatk4 markduplicatesspark test_gatk4_markduplicates_spark_multiple_bams
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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
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tags:
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- gatk4
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- gatk4/markduplicatesspark
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files:
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- path: output/gatk4/test.bam
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md5sum: 898cb0a6616897d8ada90bab53bf0837
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- name: gatk4 markduplicatesspark test_gatk4_markduplicates_spark_multiple_bams_metrics
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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
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tags:
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- gatk4
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- gatk4/markduplicatesspark
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files:
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- path: output/gatk4/test.bam
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md5sum: 898cb0a6616897d8ada90bab53bf0837
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- path: output/gatk4/test.metrics
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contains: "## METRICS CLASS\torg.broadinstitute.hellbender.utils.read.markduplicates.GATKDuplicationMetrics
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LIBRARY\tUNPAIRED_READS_EXAMINED READ_PAIRS_EXAMINED\tSECONDARY_OR_SUPPLEMENTARY_RDS\tUNMAPPED_READS\tUNPAIRED_READ_DUPLICATES\tREAD_PAIR_DUPLICATES\tREAD_PAIR_OPTICAL_DUPLICATESPERCENT_DUPLICATION\tESTIMATED_LIBRARY_SIZE
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testN\t0\t2820\t2\t2\t0\t828\t0\t0.293617\t3807
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testT\t0\t2718\t0\t0\t0\t716\t0\t0.263429\t4206"
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