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Changed Cutadapt to use nf-core modules #1347

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Changed Cutadapt to use nf-core modules

Changed Cutadapt to use nf-core modules #1347

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Triggered via pull request October 25, 2024 12:09
@svaronasvarona
synchronize #435
BU-ISCIII:cutadapt
Status Failure
Total duration 53m 42s
Artifacts –

ci.yml

on: pull_request
Matrix: test
Matrix: test_nanopore
Matrix: test_parameters
Matrix: test_sispa
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49 errors
Test parameters (24.04.2 | --skip_fastp --skip_pangolin | docker)
Process completed with exit code 1.
Test parameters (latest-everything | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --skip_variants | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --skip_variants | docker)
The operation was canceled.
Test parameters (24.04.2 | --consensus_caller ivar | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --consensus_caller ivar | docker)
The operation was canceled.
Test parameters (latest-everything | --skip_assembly | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_assembly | docker)
The operation was canceled.
Test parameters (24.04.2 | --skip_kraken2 | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --skip_kraken2 | docker)
The operation was canceled.
Test parameters (24.04.2 | --variant_caller bcftools --consensus_caller ivar | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --variant_caller bcftools --consensus_caller ivar | docker)
The operation was canceled.
Test parameters (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
The operation was canceled.
Test parameters (24.04.2 | --spades_mode corona | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --spades_mode corona | docker)
The operation was canceled.
Test parameters (24.04.2 | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
The operation was canceled.
Test parameters (latest-everything | --spades_mode corona | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --spades_mode corona | docker)
The operation was canceled.
Test parameters (latest-everything | --skip_kraken2 | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_kraken2 | docker)
The operation was canceled.
Test parameters (latest-everything | --consensus_caller ivar | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --consensus_caller ivar | docker)
The operation was canceled.
Test parameters (latest-everything | --variant_caller bcftools --consensus_caller ivar | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --variant_caller bcftools --consensus_caller ivar | docker)
The operation was canceled.
Test parameters (latest-everything | --skip_cutadapt --skip_snpeff | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_cutadapt --skip_snpeff | docker)
The operation was canceled.
Test parameters (latest-everything | --skip_noninternal_primers --threeprime_adapters | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_noninternal_primers --threeprime_adapters | docker)
The operation was canceled.
Test parameters (24.04.2 | --skip_plasmidid false --skip_asciigenome | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --skip_plasmidid false --skip_asciigenome | docker)
The operation was canceled.
Test parameters (latest-everything | --skip_plasmidid false --skip_asciigenome | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_plasmidid false --skip_asciigenome | docker)
The operation was canceled.
Test parameters (24.04.2 | --skip_cutadapt --skip_snpeff | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --skip_cutadapt --skip_snpeff | docker)
The operation was canceled.
Test parameters (24.04.2 | --spades_mode metaviral | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --spades_mode metaviral | docker)
The operation was canceled.
Test parameters (24.04.2 | --skip_noninternal_primers --threeprime_adapters | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --skip_noninternal_primers --threeprime_adapters | docker)
The operation was canceled.
Test parameters (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
The operation was canceled.
Test parameters (latest-everything | --spades_mode metaviral | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_variants | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_variants | docker)
The operation was canceled.
Test parameters (latest-everything | --skip_fastp --skip_pangolin | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (latest-everything | --skip_fastp --skip_pangolin | docker)
The operation was canceled.
Test parameters (24.04.2 | --skip_assembly | docker)
The job was canceled because "_24_04_2_docker_--skip_fa" failed.
Test parameters (24.04.2 | --skip_assembly | docker)
The operation was canceled.