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Add nf-test sharding CI #7

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Add nf-test sharding CI

Add nf-test sharding CI #7

Triggered via pull request October 1, 2024 20:19
@edmundmilleredmundmiller
synchronize #1668
fresh-nf-test
Status Success
Total duration 7m 30s
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pytest.yml

on: pull_request
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272 errors
Test Workflow SAMPLESHEET_TO_CHANNEL.Should run without failures: Test Workflow SAMPLESHEET_TO_CHANNEL#L1
Assertion failed: assert workflow.success | | workflow false
Test Workflow UTILS_NFVALIDATION_PLUGIN.Should validate params: Test Workflow UTILS_NFVALIDATION_PLUGIN#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline.Run with profile test: Test pipeline#L1
Assertion failed: 2 of 2 assertions failed
Test Workflow SAMPLESHEET_TO_CHANNEL.Should run without failures: Test Workflow SAMPLESHEET_TO_CHANNEL#L1
Assertion failed: assert workflow.success | | workflow false
Test Workflow UTILS_NFVALIDATION_PLUGIN.Should validate params: Test Workflow UTILS_NFVALIDATION_PLUGIN#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline.Run with profile test: Test pipeline#L1
Assertion failed: 1 of 2 assertions failed
Test Process BCFTOOLS_CONCAT.sarscov2 - [[vcf1, vcf2], [tbi1, tbi2]]: Test Process BCFTOOLS_CONCAT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, true: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 6 of 6 assertions failed
Test Process BCFTOOLS_SORT.sarscov2 - vcf - stub: Test Process BCFTOOLS_SORT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BWAMEM2_INDEX.BWAMEM2 index: Test Process BWAMEM2_INDEX#L1
Assertion failed: 1 of 2 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - [fastq1, fastq2], index, fasta, true - stub: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch wgs - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch germline hybrid mode - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process DEEPVARIANT.homo_sapiens - [bam, bai] - fasta - fai: Test Process DEEPVARIANT#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - [fastq1, fastq2], hashtable, fasta, false: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_HASHTABLE.sarscov2 - fasta - stub: Test Process DRAGMAP_HASHTABLE#L1
Assertion failed: 1 of 2 assertions failed
Test Process FASTP.test_fastp_single_end: Test Process FASTP#L1
Assertion failed: 1 of 7 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - bam: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ bam, bai ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_APPLYBQSR.sarscov2 - bam: Test Process GATK4_APPLYBQSR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_BASERECALIBRATOR.homo_sapiens - cram : Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_GENOMICSDBIMPORT.test_gatk4_genomicsdbimport_get_intervalslist: Test Process GATK4_GENOMICSDBIMPORT#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_MUTECT2.tumor_normal_pair_f1r2: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4_MUTECT2.tumor_normal_pair_f1r2_stubs: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.sarscov2 - bam: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, []: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, [] - quantized: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - vcf - stub: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_MPILEUP.bam_bed: Test Process SAMTOOLS_MPILEUP#L1
Assertion failed: 2 of 3 assertions failed
Test Process SNPEFF_DOWNLOAD.test-snpeff-download: Test Process SNPEFF_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process STRELKA_GERMLINE.human - cram - stub: Test Process STRELKA_GERMLINE#L1
Assertion failed: 1 of 2 assertions failed
Test Process TABIX_TABIX.sarscov2_gff_tbi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.sarscov2 - bam - no_bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_CONCAT.sarscov2 - [[vcf1, vcf2], []]: Test Process BCFTOOLS_CONCAT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, true stub: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 6 of 6 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - fastq, index, fasta, false: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch wgs - cram: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch pon mode - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process DEEPVARIANT.homo_sapiens - [cram, crai, genome_bed] - fasta - fai: Test Process DEEPVARIANT#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - [fastq1, fastq2], hashtable, fasta, true: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_DOWNLOAD.celegans - download: Test Process ENSEMBLVEP_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process FASTP.test_fastp_single_end_trim_fail: Test Process FASTP#L1
Assertion failed: 1 of 7 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - fastq1: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ bam, bai, bed ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_APPLYBQSR.sarscov2 - bam - intervals: Test Process GATK4_APPLYBQSR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [bam, bai] - fasta - fai - dict: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.tumor_single: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - bam: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.homo_sapiens - bam - multiple: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, bed: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, bed - thresholds: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMBLASTER.homo_sapiens-test_paired_end_umi_unsorted_bam: Test Process SAMBLASTER#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_MPILEUP.bam_bed_fasta: Test Process SAMTOOLS_MPILEUP#L1
Assertion failed: 2 of 3 assertions failed
Test Process SNPEFF_DOWNLOAD.test-snpeff-download-stub: Test Process SNPEFF_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process TABIX_BGZIPTABIX.sarscov2_bed_tbi: Test Process TABIX_BGZIPTABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TABIX_TABIX.sarscov2_vcf_tbi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.human - cram - bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_CONCAT.sarscov2 - [[vcf1, vcf2], [tbi1, tbi2]]: Test Process BCFTOOLS_CONCAT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, true: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 6 of 6 assertions failed
Test Process BCFTOOLS_SORT.sarscov2 - vcf - stub: Test Process BCFTOOLS_SORT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BWAMEM2_INDEX.BWAMEM2 index: Test Process BWAMEM2_INDEX#L1
Assertion failed: 1 of 2 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - [fastq1, fastq2], index, fasta, true - stub: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch wgs - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch germline hybrid mode - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process DEEPVARIANT.homo_sapiens - [bam, bai] - fasta - fai: Test Process DEEPVARIANT#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - [fastq1, fastq2], hashtable, fasta, false: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_HASHTABLE.sarscov2 - fasta - stub: Test Process DRAGMAP_HASHTABLE#L1
Assertion failed: 1 of 2 assertions failed
Test Process FASTP.test_fastp_single_end: Test Process FASTP#L1
Assertion failed: 1 of 7 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - bam: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ bam, bai ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_APPLYBQSR.sarscov2 - bam: Test Process GATK4_APPLYBQSR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_BASERECALIBRATOR.homo_sapiens - cram : Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_GENOMICSDBIMPORT.test_gatk4_genomicsdbimport_get_intervalslist: Test Process GATK4_GENOMICSDBIMPORT#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_MUTECT2.tumor_normal_pair_f1r2: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4_MUTECT2.tumor_normal_pair_f1r2_stubs: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.sarscov2 - bam: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, []: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, [] - quantized: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - vcf - stub: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_MPILEUP.bam_bed: Test Process SAMTOOLS_MPILEUP#L1
Assertion failed: 2 of 3 assertions failed
Test Process SNPEFF_DOWNLOAD.test-snpeff-download: Test Process SNPEFF_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process STRELKA_GERMLINE.human - cram - stub: Test Process STRELKA_GERMLINE#L1
Assertion failed: 1 of 2 assertions failed
Test Process TABIX_TABIX.sarscov2_gff_tbi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.sarscov2 - bam - no_bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_ANNOTATE.sarscov2 - [vcf, tbi, vcf2, tbi2, []] - stub: Test Process BCFTOOLS_ANNOTATE#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, false stub: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BCFTOOLS_SORT.sarscov2 - vcf: Test Process BCFTOOLS_SORT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - [fastq1, fastq2], index, fasta, true: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch hybrid mode - bam: Test Process CNVKIT_BATCH#L1
java.lang.RuntimeException: Process has no output channels. process.out can not be used.
Test Process CNVKIT_BATCH.cnvkit batch germline mode - cram: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_REFERENCE.human - [fasta, bed] - stub: Test Process CNVKIT_REFERENCE#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - fastq, hashtable, fasta, true: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_HASHTABLE.sarscov2 - fasta: Test Process DRAGMAP_HASHTABLE#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_VEP.test_ensemblvep_vep_fasta_tab_gz: Test Process ENSEMBLVEP_VEP#L1
Assertion failed: 2 of 3 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - cram: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - stub: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ cram, crai, cram, crai, bed ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam - stub: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY.sarscov2 - bam - stub: Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [cram, crai, dragstr_model] - fasta - fai - dict - sites - sites_tbi: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.tumor_normal_pair: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4_MUTECT2.mitochondria: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - cram: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, [] - window: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - bam - stub: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process TABIX_TABIX.sarscov2_bedgz_tbi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.sarscov2 - bam - bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_ANNOTATE.sarscov2 - [vcf, tbi, vcf2, tbi2, []] - stub: Test Process BCFTOOLS_ANNOTATE#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, false stub: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BCFTOOLS_SORT.sarscov2 - vcf: Test Process BCFTOOLS_SORT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - [fastq1, fastq2], index, fasta, true: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch hybrid mode - bam: Test Process CNVKIT_BATCH#L1
java.lang.RuntimeException: Process has no output channels. process.out can not be used.
Test Process CNVKIT_BATCH.cnvkit batch germline mode - cram: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_REFERENCE.human - [fasta, bed] - stub: Test Process CNVKIT_REFERENCE#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - fastq, hashtable, fasta, true: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_HASHTABLE.sarscov2 - fasta: Test Process DRAGMAP_HASHTABLE#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_VEP.test_ensemblvep_vep_fasta_tab_gz: Test Process ENSEMBLVEP_VEP#L1
Assertion failed: 2 of 3 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - cram: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - stub: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ cram, crai, cram, crai, bed ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam - stub: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY.sarscov2 - bam - stub: Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [cram, crai, dragstr_model] - fasta - fai - dict - sites - sites_tbi: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.tumor_normal_pair: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4_MUTECT2.mitochondria: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - cram: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, [] - window: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - bam - stub: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process TABIX_TABIX.sarscov2_bedgz_tbi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.sarscov2 - bam - bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_CONCAT.sarscov2 - [[vcf1, vcf2], []]: Test Process BCFTOOLS_CONCAT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, true stub: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 6 of 6 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - fastq, index, fasta, false: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch wgs - cram: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch pon mode - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process DEEPVARIANT.homo_sapiens - [cram, crai, genome_bed] - fasta - fai: Test Process DEEPVARIANT#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - [fastq1, fastq2], hashtable, fasta, true: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_DOWNLOAD.celegans - download: Test Process ENSEMBLVEP_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process FASTP.test_fastp_single_end_trim_fail: Test Process FASTP#L1
Assertion failed: 1 of 7 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - fastq1: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ bam, bai, bed ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_APPLYBQSR.sarscov2 - bam - intervals: Test Process GATK4_APPLYBQSR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [bam, bai] - fasta - fai - dict: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.tumor_single: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - bam: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.homo_sapiens - bam - multiple: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, bed: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, bed - thresholds: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMBLASTER.homo_sapiens-test_paired_end_umi_unsorted_bam: Test Process SAMBLASTER#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_MPILEUP.bam_bed_fasta: Test Process SAMTOOLS_MPILEUP#L1
Assertion failed: 2 of 3 assertions failed
Test Process SNPEFF_DOWNLOAD.test-snpeff-download-stub: Test Process SNPEFF_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process TABIX_BGZIPTABIX.sarscov2_bed_tbi: Test Process TABIX_BGZIPTABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TABIX_TABIX.sarscov2_vcf_tbi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.human - cram - bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_ANNOTATE.sarscov2 - [vcf, tbi, vcf2, tbi2, []] - vcf_output: Test Process BCFTOOLS_ANNOTATE#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_CONCAT.sarscov2 - [[vcf1, vcf2], [tbi1, tbi2]] - stub: Test Process BCFTOOLS_CONCAT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, bed], fasta, false: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - fastq, index, fasta, true: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_ANTITARGET.human - bed: Test Process CNVKIT_ANTITARGET#L1
Assertion failed: 2 of 3 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch tumouronly mode - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch - bam - stub: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process DEEPVARIANT.homo_sapiens - [bam, bai] - fasta_gz - fasta_gz_fai: Test Process DEEPVARIANT#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.homo_sapiens - [fastq1, fastq2], hashtable, fasta, true: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_DOWNLOAD.celegans - download - stub: Test Process ENSEMBLVEP_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process FASTP.test_fastp_paired_end: Test Process FASTP#L1
Assertion failed: 2 of 8 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - umi: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ cram, crai ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_APPLYBQSR.sarscov2 - cram: Test Process GATK4_APPLYBQSR#L1
Assertion failed: 1 of 3 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam - intervals: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY.homo_sapiens - bam: Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [cram, crai] - fasta - fai - dict: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.cram_input: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - bam intervals: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.homo_sapiens - bam - metrics: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 6 of 6 assertions failed
Test Process LOFREQ_CALLPARALLEL.sarscov2 - bam: Test Process LOFREQ_CALLPARALLEL#L1
Assertion failed: 1 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - cram, crai, []: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - bam: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMBLASTER.stub: Test Process SAMBLASTER#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_STATS.bam: Test Process SAMTOOLS_STATS#L1
Assertion failed: 1 of 2 assertions failed
Test Process SNPEFF_SNPEFF.test_SNPEFF_SNPEFF: Test Process SNPEFF_SNPEFF#L1
Assertion failed: 5 of 6 assertions failed
Test Process TABIX_BGZIPTABIX.sarscov2_bed_csi: Test Process TABIX_BGZIPTABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TABIX_TABIX.sarscov2_vcf_csi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.human - cram - no_bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_ANNOTATE.sarscov2 - [vcf, [], [], [], header] - bcf_output: Test Process BCFTOOLS_ANNOTATE#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, false: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, bed], fasta, false stub: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - [fastq1, fastq2], index, fasta, false: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_ANTITARGET.human - bed - stub: Test Process CNVKIT_ANTITARGET#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch tumouronly mode - cram: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_REFERENCE.human - [fasta, bed]: Test Process CNVKIT_REFERENCE#L1
Assertion failed: 2 of 3 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - fastq, hashtable, fasta, false: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - [fastq1, fastq2], hashtable, fasta, true - stub: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_VEP.test_ensemblvep_vep_fasta_vcf: Test Process ENSEMBLVEP_VEP#L1
Assertion failed: 2 of 3 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - default: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - custom sample: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ bam, bai, bam, bai ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam - multiple sites: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY.homo_sapiens - cram: Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [cram, crai] - fasta - fai - dict - sites - sites_tbi: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.generate_pon: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - bam - stub: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.homo_sapiens - cram: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 2 of 2 assertions failed
Test Process LOFREQ_CALLPARALLEL.sarscov2 - bam - bed: Test Process LOFREQ_CALLPARALLEL#L1
Assertion failed: 1 of 2 assertions failed
Test Process MANTA_TUMORONLY.human - cram - bed: Test Process MANTA_TUMORONLY#L1
Assertion failed: 1 of 5 assertions failed
Test Process MOSDEPTH.homo_sapiens - cram, crai, bed: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, [] - stub: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - vcf: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_STATS.cram: Test Process SAMTOOLS_STATS#L1
Assertion failed: 1 of 2 assertions failed
Test Process STRELKA_SOMATIC.human - cram - stub: Test Process STRELKA_SOMATIC#L1
Assertion failed: 1 of 2 assertions failed
Test Process TABIX_BGZIPTABIX.sarscov2_bed_csi_stub: Test Process TABIX_BGZIPTABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TABIX_TABIX.sarscov2_vcf_csi_stub: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.sarscov2 - bam - stub: Test Process TIDDIT_SV#L1
Assertion failed: 1 of 2 assertions failed
Test Process BCFTOOLS_ANNOTATE.sarscov2 - [vcf, tbi, vcf2, tbi2, []] - vcf_output: Test Process BCFTOOLS_ANNOTATE#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_CONCAT.sarscov2 - [[vcf1, vcf2], [tbi1, tbi2]] - stub: Test Process BCFTOOLS_CONCAT#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, bed], fasta, false: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - fastq, index, fasta, true: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_ANTITARGET.human - bed: Test Process CNVKIT_ANTITARGET#L1
Assertion failed: 2 of 3 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch tumouronly mode - bam: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch - bam - stub: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process DEEPVARIANT.homo_sapiens - [bam, bai] - fasta_gz - fasta_gz_fai: Test Process DEEPVARIANT#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.homo_sapiens - [fastq1, fastq2], hashtable, fasta, true: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_DOWNLOAD.celegans - download - stub: Test Process ENSEMBLVEP_DOWNLOAD#L1
Assertion failed: 1 of 2 assertions failed
Test Process FASTP.test_fastp_paired_end: Test Process FASTP#L1
Assertion failed: 2 of 8 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - umi: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ cram, crai ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_APPLYBQSR.sarscov2 - cram: Test Process GATK4_APPLYBQSR#L1
Assertion failed: 1 of 3 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam - intervals: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY.homo_sapiens - bam: Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [cram, crai] - fasta - fai - dict: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.cram_input: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - bam intervals: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.homo_sapiens - bam - metrics: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 6 of 6 assertions failed
Test Process LOFREQ_CALLPARALLEL.sarscov2 - bam: Test Process LOFREQ_CALLPARALLEL#L1
Assertion failed: 1 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - cram, crai, []: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - bam: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMBLASTER.stub: Test Process SAMBLASTER#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_STATS.bam: Test Process SAMTOOLS_STATS#L1
Assertion failed: 1 of 2 assertions failed
Test Process SNPEFF_SNPEFF.test_SNPEFF_SNPEFF: Test Process SNPEFF_SNPEFF#L1
Assertion failed: 5 of 6 assertions failed
Test Process TABIX_BGZIPTABIX.sarscov2_bed_csi: Test Process TABIX_BGZIPTABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TABIX_TABIX.sarscov2_vcf_csi: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.human - cram - no_bwa: Test Process TIDDIT_SV#L1
Assertion failed: 3 of 4 assertions failed
Test Process BCFTOOLS_ANNOTATE.sarscov2 - [vcf, [], [], [], header] - bcf_output: Test Process BCFTOOLS_ANNOTATE#L1
Assertion failed: 2 of 2 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, []], fasta, false: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BCFTOOLS_MPILEUP.sarscov2 - [bam, bed], fasta, false stub: Test Process BCFTOOLS_MPILEUP#L1
Assertion failed: 5 of 5 assertions failed
Test Process BWAMEM2_MEM.sarscov2 - [fastq1, fastq2], index, fasta, false: Test Process BWAMEM2_MEM#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_ANTITARGET.human - bed - stub: Test Process CNVKIT_ANTITARGET#L1
Assertion failed: 1 of 2 assertions failed
Test Process CNVKIT_BATCH.cnvkit batch tumouronly mode - cram: Test Process CNVKIT_BATCH#L1
Assertion failed: 2 of 2 assertions failed
Test Process CNVKIT_REFERENCE.human - [fasta, bed]: Test Process CNVKIT_REFERENCE#L1
Assertion failed: 2 of 3 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - fastq, hashtable, fasta, false: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process DRAGMAP_ALIGN.sarscov2 - [fastq1, fastq2], hashtable, fasta, true - stub: Test Process DRAGMAP_ALIGN#L1
Assertion failed: 1 of 2 assertions failed
Test Process ENSEMBLVEP_VEP.test_ensemblvep_vep_fasta_vcf: Test Process ENSEMBLVEP_VEP#L1
Assertion failed: 2 of 3 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - default: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FGBIO_FASTQTOBAM.homo_sapiens - [fastq1, fastq2] - custom sample: Test Process FGBIO_FASTQTOBAM#L1
Assertion failed: 2 of 2 assertions failed
Test Process FREEBAYES.sarscov2 - [ bam, bai, bam, bai ] - fasta - fai: Test Process FREEBAYES#L1
Assertion failed: 4 of 4 assertions failed
Test Process GATK4_BASERECALIBRATOR.sarscov2 - bam - multiple sites: Test Process GATK4_BASERECALIBRATOR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY.homo_sapiens - cram: Test Process GATK4_ESTIMATELIBRARYCOMPLEXITY#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4_HAPLOTYPECALLER.homo_sapiens - [cram, crai] - fasta - fai - dict - sites - sites_tbi: Test Process GATK4_HAPLOTYPECALLER#L1
Assertion failed: 3 of 3 assertions failed
Test Process GATK4_MUTECT2.generate_pon: Test Process GATK4_MUTECT2#L1
Assertion failed: 2 of 2 assertions failed
Test Process GATK4SPARK_APPLYBQSR.sarscov2 - bam - stub: Test Process GATK4SPARK_APPLYBQSR#L1
Assertion failed: 1 of 2 assertions failed
Test Process GATK4SPARK_MARKDUPLICATES.homo_sapiens - cram: Test Process GATK4SPARK_MARKDUPLICATES#L1
Assertion failed: 2 of 2 assertions failed
Test Process LOFREQ_CALLPARALLEL.sarscov2 - bam - bed: Test Process LOFREQ_CALLPARALLEL#L1
Assertion failed: 1 of 2 assertions failed
Test Process MANTA_TUMORONLY.human - cram - bed: Test Process MANTA_TUMORONLY#L1
Assertion failed: 1 of 5 assertions failed
Test Process MOSDEPTH.homo_sapiens - cram, crai, bed: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process MOSDEPTH.homo_sapiens - bam, bai, [] - stub: Test Process MOSDEPTH#L1
Assertion failed: 2 of 2 assertions failed
Test Process NGSCHECKMATE_NCM.sarscov2 - vcf: Test Process NGSCHECKMATE_NCM#L1
Assertion failed: 2 of 2 assertions failed
Test Process SAMTOOLS_STATS.cram: Test Process SAMTOOLS_STATS#L1
Assertion failed: 1 of 2 assertions failed
Test Process STRELKA_SOMATIC.human - cram - stub: Test Process STRELKA_SOMATIC#L1
Assertion failed: 1 of 2 assertions failed
Test Process TABIX_BGZIPTABIX.sarscov2_bed_csi_stub: Test Process TABIX_BGZIPTABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TABIX_TABIX.sarscov2_vcf_csi_stub: Test Process TABIX_TABIX#L1
Assertion failed: 3 of 3 assertions failed
Test Process TIDDIT_SV.sarscov2 - bam - stub: Test Process TIDDIT_SV#L1
Assertion failed: 1 of 2 assertions failed