reset proper paths for modlules

nf-core · Aug 28, 2024 · 47c7cfc · 47c7cfc
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diff --git a/...nf-core/bcftools/annotate/environment.yml → ...modules/bcftools/annotate/environment.yml b/...nf-core/bcftools/annotate/environment.yml → ...modules/bcftools/annotate/environment.yml
diff --git a/modules/nf-core/bcftools/annotate/main.nf → ...nf-core/modules/bcftools/annotate/main.nf b/modules/nf-core/bcftools/annotate/main.nf → ...nf-core/modules/bcftools/annotate/main.nf
diff --git a/modules/nf-core/bcftools/annotate/meta.yml → ...f-core/modules/bcftools/annotate/meta.yml b/modules/nf-core/bcftools/annotate/meta.yml → ...f-core/modules/bcftools/annotate/meta.yml
diff --git a/...f-core/bcftools/annotate/tests/bcf.config → ...odules/bcftools/annotate/tests/bcf.config b/...f-core/bcftools/annotate/tests/bcf.config → ...odules/bcftools/annotate/tests/bcf.config
diff --git a/...core/bcftools/annotate/tests/main.nf.test → ...ules/bcftools/annotate/tests/main.nf.test b/...core/bcftools/annotate/tests/main.nf.test → ...ules/bcftools/annotate/tests/main.nf.test
diff --git a/...bcftools/annotate/tests/main.nf.test.snap → ...bcftools/annotate/tests/main.nf.test.snap b/...bcftools/annotate/tests/main.nf.test.snap → ...bcftools/annotate/tests/main.nf.test.snap
diff --git a/.../nf-core/bcftools/annotate/tests/tags.yml → .../modules/bcftools/annotate/tests/tags.yml b/.../nf-core/bcftools/annotate/tests/tags.yml → .../modules/bcftools/annotate/tests/tags.yml
diff --git a/...f-core/bcftools/annotate/tests/vcf.config → ...odules/bcftools/annotate/tests/vcf.config b/...f-core/bcftools/annotate/tests/vcf.config → ...odules/bcftools/annotate/tests/vcf.config
diff --git a/...s/nf-core/bcftools/concat/environment.yml → ...e/modules/bcftools/concat/environment.yml b/...s/nf-core/bcftools/concat/environment.yml → ...e/modules/bcftools/concat/environment.yml
diff --git a/modules/nf-core/bcftools/concat/main.nf → ...s/nf-core/modules/bcftools/concat/main.nf b/modules/nf-core/bcftools/concat/main.nf → ...s/nf-core/modules/bcftools/concat/main.nf
diff --git a/modules/nf-core/bcftools/concat/meta.yml → .../nf-core/modules/bcftools/concat/meta.yml b/modules/nf-core/bcftools/concat/meta.yml → .../nf-core/modules/bcftools/concat/meta.yml
diff --git a/...f-core/bcftools/concat/tests/main.nf.test → ...odules/bcftools/concat/tests/main.nf.test b/...f-core/bcftools/concat/tests/main.nf.test → ...odules/bcftools/concat/tests/main.nf.test
diff --git a/...e/bcftools/concat/tests/main.nf.test.snap → ...s/bcftools/concat/tests/main.nf.test.snap b/...e/bcftools/concat/tests/main.nf.test.snap → ...s/bcftools/concat/tests/main.nf.test.snap
diff --git a/...ore/bcftools/concat/tests/nextflow.config → ...les/bcftools/concat/tests/nextflow.config b/...ore/bcftools/concat/tests/nextflow.config → ...les/bcftools/concat/tests/nextflow.config
diff --git a/...es/nf-core/bcftools/concat/tests/tags.yml → ...re/modules/bcftools/concat/tests/tags.yml b/...es/nf-core/bcftools/concat/tests/tags.yml → ...re/modules/bcftools/concat/tests/tags.yml
diff --git a/...re/bcftools/pluginscatter/environment.yml → ...es/bcftools/pluginscatter/environment.yml b/...re/bcftools/pluginscatter/environment.yml → ...es/bcftools/pluginscatter/environment.yml
diff --git a/...es/nf-core/bcftools/pluginscatter/main.nf → ...re/modules/bcftools/pluginscatter/main.nf b/...es/nf-core/bcftools/pluginscatter/main.nf → ...re/modules/bcftools/pluginscatter/main.nf
diff --git a/...s/nf-core/bcftools/pluginscatter/meta.yml → ...e/modules/bcftools/pluginscatter/meta.yml b/...s/nf-core/bcftools/pluginscatter/meta.yml → ...e/modules/bcftools/pluginscatter/meta.yml
diff --git a/...les/nf-core/bcftools/sort/environment.yml → ...ore/modules/bcftools/sort/environment.yml b/...les/nf-core/bcftools/sort/environment.yml → ...ore/modules/bcftools/sort/environment.yml
diff --git a/modules/nf-core/bcftools/sort/main.nf → ...les/nf-core/modules/bcftools/sort/main.nf b/modules/nf-core/bcftools/sort/main.nf → ...les/nf-core/modules/bcftools/sort/main.nf
diff --git a/modules/nf-core/bcftools/sort/meta.yml → ...es/nf-core/modules/bcftools/sort/meta.yml b/modules/nf-core/bcftools/sort/meta.yml → ...es/nf-core/modules/bcftools/sort/meta.yml
diff --git a/.../nf-core/bcftools/sort/tests/main.nf.test → .../modules/bcftools/sort/tests/main.nf.test b/.../nf-core/bcftools/sort/tests/main.nf.test → .../modules/bcftools/sort/tests/main.nf.test
diff --git a/...ore/bcftools/sort/tests/main.nf.test.snap → ...les/bcftools/sort/tests/main.nf.test.snap b/...ore/bcftools/sort/tests/main.nf.test.snap → ...les/bcftools/sort/tests/main.nf.test.snap
diff --git a/modules/nf-core/bcftools/sort/tests/tags.yml → ...core/modules/bcftools/sort/tests/tags.yml b/modules/nf-core/bcftools/sort/tests/tags.yml → ...core/modules/bcftools/sort/tests/tags.yml
diff --git a/...es/nf-core/bedtools/merge/environment.yml → ...re/modules/bedtools/merge/environment.yml b/...es/nf-core/bedtools/merge/environment.yml → ...re/modules/bedtools/merge/environment.yml
diff --git a/modules/nf-core/bedtools/merge/main.nf → ...es/nf-core/modules/bedtools/merge/main.nf b/modules/nf-core/bedtools/merge/main.nf → ...es/nf-core/modules/bedtools/merge/main.nf
diff --git a/modules/nf-core/bedtools/merge/meta.yml → ...s/nf-core/modules/bedtools/merge/meta.yml b/modules/nf-core/bedtools/merge/meta.yml → ...s/nf-core/modules/bedtools/merge/meta.yml
diff --git a/...nf-core/bedtools/merge/tests/main.nf.test → ...modules/bedtools/merge/tests/main.nf.test b/...nf-core/bedtools/merge/tests/main.nf.test → ...modules/bedtools/merge/tests/main.nf.test
diff --git a/...re/bedtools/merge/tests/main.nf.test.snap → ...es/bedtools/merge/tests/main.nf.test.snap b/...re/bedtools/merge/tests/main.nf.test.snap → ...es/bedtools/merge/tests/main.nf.test.snap
diff --git a/...core/bedtools/merge/tests/nextflow.config → ...ules/bedtools/merge/tests/nextflow.config b/...core/bedtools/merge/tests/nextflow.config → ...ules/bedtools/merge/tests/nextflow.config
diff --git a/...les/nf-core/bedtools/merge/tests/tags.yml → ...ore/modules/bedtools/merge/tests/tags.yml b/...les/nf-core/bedtools/merge/tests/tags.yml → ...ore/modules/bedtools/merge/tests/tags.yml
diff --git a/...les/nf-core/bedtools/sort/environment.yml → ...ore/modules/bedtools/sort/environment.yml b/...les/nf-core/bedtools/sort/environment.yml → ...ore/modules/bedtools/sort/environment.yml
diff --git a/modules/nf-core/bedtools/sort/main.nf → ...les/nf-core/modules/bedtools/sort/main.nf b/modules/nf-core/bedtools/sort/main.nf → ...les/nf-core/modules/bedtools/sort/main.nf
diff --git a/modules/nf-core/bedtools/sort/meta.yml → ...es/nf-core/modules/bedtools/sort/meta.yml b/modules/nf-core/bedtools/sort/meta.yml → ...es/nf-core/modules/bedtools/sort/meta.yml
diff --git a/.../nf-core/bedtools/sort/tests/main.nf.test → .../modules/bedtools/sort/tests/main.nf.test b/.../nf-core/bedtools/sort/tests/main.nf.test → .../modules/bedtools/sort/tests/main.nf.test
diff --git a/...ore/bedtools/sort/tests/main.nf.test.snap → ...les/bedtools/sort/tests/main.nf.test.snap b/...ore/bedtools/sort/tests/main.nf.test.snap → ...les/bedtools/sort/tests/main.nf.test.snap
diff --git a/...-core/bedtools/sort/tests/nextflow.config → ...dules/bedtools/sort/tests/nextflow.config b/...-core/bedtools/sort/tests/nextflow.config → ...dules/bedtools/sort/tests/nextflow.config
diff --git a/modules/nf-core/bedtools/sort/tests/tags.yml → ...core/modules/bedtools/sort/tests/tags.yml b/modules/nf-core/bedtools/sort/tests/tags.yml → ...core/modules/bedtools/sort/tests/tags.yml
diff --git a/modules/nf-core/cat/fastq/environment.yml → ...nf-core/modules/cat/fastq/environment.yml b/modules/nf-core/cat/fastq/environment.yml → ...nf-core/modules/cat/fastq/environment.yml
diff --git a/modules/nf-core/cat/fastq/main.nf → modules/nf-core/modules/cat/fastq/main.nf b/modules/nf-core/cat/fastq/main.nf → modules/nf-core/modules/cat/fastq/main.nf
diff --git a/modules/nf-core/cat/fastq/meta.yml → modules/nf-core/modules/cat/fastq/meta.yml b/modules/nf-core/cat/fastq/meta.yml → modules/nf-core/modules/cat/fastq/meta.yml
diff --git a/modules/nf-core/cat/fastq/tests/main.nf.test → ...core/modules/cat/fastq/tests/main.nf.test b/modules/nf-core/cat/fastq/tests/main.nf.test → ...core/modules/cat/fastq/tests/main.nf.test
diff --git a/...nf-core/cat/fastq/tests/main.nf.test.snap → ...modules/cat/fastq/tests/main.nf.test.snap b/...nf-core/cat/fastq/tests/main.nf.test.snap → ...modules/cat/fastq/tests/main.nf.test.snap
diff --git a/modules/nf-core/cat/fastq/tests/tags.yml → .../nf-core/modules/cat/fastq/tests/tags.yml b/modules/nf-core/cat/fastq/tests/tags.yml → .../nf-core/modules/cat/fastq/tests/tags.yml
diff --git a/...-core/ensemblvep/download/environment.yml → ...dules/ensemblvep/download/environment.yml b/...-core/ensemblvep/download/environment.yml → ...dules/ensemblvep/download/environment.yml
diff --git a/modules/nf-core/ensemblvep/download/main.nf → ...-core/modules/ensemblvep/download/main.nf b/modules/nf-core/ensemblvep/download/main.nf → ...-core/modules/ensemblvep/download/main.nf
diff --git a/modules/nf-core/ensemblvep/download/meta.yml → ...core/modules/ensemblvep/download/meta.yml b/modules/nf-core/ensemblvep/download/meta.yml → ...core/modules/ensemblvep/download/meta.yml
diff --git a/...re/ensemblvep/download/tests/main.nf.test → ...es/ensemblvep/download/tests/main.nf.test b/...re/ensemblvep/download/tests/main.nf.test → ...es/ensemblvep/download/tests/main.nf.test
diff --git a/...semblvep/download/tests/main.nf.test.snap → ...semblvep/download/tests/main.nf.test.snap b/...semblvep/download/tests/main.nf.test.snap → ...semblvep/download/tests/main.nf.test.snap
diff --git a/...ensemblvep/download/tests/nextflow.config → ...ensemblvep/download/tests/nextflow.config b/...ensemblvep/download/tests/nextflow.config → ...ensemblvep/download/tests/nextflow.config
diff --git a/...f-core/ensemblvep/download/tests/tags.yml → ...odules/ensemblvep/download/tests/tags.yml b/...f-core/ensemblvep/download/tests/tags.yml → ...odules/ensemblvep/download/tests/tags.yml
diff --git a/...es/nf-core/ensemblvep/vep/environment.yml → ...re/modules/ensemblvep/vep/environment.yml b/...es/nf-core/ensemblvep/vep/environment.yml → ...re/modules/ensemblvep/vep/environment.yml
diff --git a/modules/nf-core/ensemblvep/vep/main.nf → ...es/nf-core/modules/ensemblvep/vep/main.nf b/modules/nf-core/ensemblvep/vep/main.nf → ...es/nf-core/modules/ensemblvep/vep/main.nf
diff --git a/modules/nf-core/ensemblvep/vep/meta.yml → ...s/nf-core/modules/ensemblvep/vep/meta.yml b/modules/nf-core/ensemblvep/vep/meta.yml → ...s/nf-core/modules/ensemblvep/vep/meta.yml
diff --git a/...nf-core/ensemblvep/vep/tests/main.nf.test → ...modules/ensemblvep/vep/tests/main.nf.test b/...nf-core/ensemblvep/vep/tests/main.nf.test → ...modules/ensemblvep/vep/tests/main.nf.test
diff --git a/...re/ensemblvep/vep/tests/main.nf.test.snap → ...es/ensemblvep/vep/tests/main.nf.test.snap b/...re/ensemblvep/vep/tests/main.nf.test.snap → ...es/ensemblvep/vep/tests/main.nf.test.snap
diff --git a/...core/ensemblvep/vep/tests/nextflow.config → ...ules/ensemblvep/vep/tests/nextflow.config b/...core/ensemblvep/vep/tests/nextflow.config → ...ules/ensemblvep/vep/tests/nextflow.config
diff --git a/...f-core/ensemblvep/vep/tests/tab.gz.config → ...odules/ensemblvep/vep/tests/tab.gz.config b/...f-core/ensemblvep/vep/tests/tab.gz.config → ...odules/ensemblvep/vep/tests/tab.gz.config
diff --git a/...les/nf-core/ensemblvep/vep/tests/tags.yml → ...ore/modules/ensemblvep/vep/tests/tags.yml b/...les/nf-core/ensemblvep/vep/tests/tags.yml → ...ore/modules/ensemblvep/vep/tests/tags.yml
diff --git a/...s/nf-core/ensemblvep/vep/tests/vcf.config → ...e/modules/ensemblvep/vep/tests/vcf.config b/...s/nf-core/ensemblvep/vep/tests/vcf.config → ...e/modules/ensemblvep/vep/tests/vcf.config
diff --git a/modules/nf-core/fastqc/environment.yml → ...es/nf-core/modules/fastqc/environment.yml b/modules/nf-core/fastqc/environment.yml → ...es/nf-core/modules/fastqc/environment.yml
diff --git a/modules/nf-core/fastqc/main.nf → modules/nf-core/modules/fastqc/main.nf b/modules/nf-core/fastqc/main.nf → modules/nf-core/modules/fastqc/main.nf
diff --git a/modules/nf-core/fastqc/meta.yml → modules/nf-core/modules/fastqc/meta.yml b/modules/nf-core/fastqc/meta.yml → modules/nf-core/modules/fastqc/meta.yml
diff --git a/modules/nf-core/fastqc/tests/main.nf.test → ...nf-core/modules/fastqc/tests/main.nf.test b/modules/nf-core/fastqc/tests/main.nf.test → ...nf-core/modules/fastqc/tests/main.nf.test
diff --git a/...es/nf-core/fastqc/tests/main.nf.test.snap → ...re/modules/fastqc/tests/main.nf.test.snap b/...es/nf-core/fastqc/tests/main.nf.test.snap → ...re/modules/fastqc/tests/main.nf.test.snap
diff --git a/modules/nf-core/fastqc/tests/tags.yml → ...les/nf-core/modules/fastqc/tests/tags.yml b/modules/nf-core/fastqc/tests/tags.yml → ...les/nf-core/modules/fastqc/tests/tags.yml
diff --git a/...s/nf-core/gatk4/applybqsr/environment.yml → ...e/modules/gatk4/applybqsr/environment.yml b/...s/nf-core/gatk4/applybqsr/environment.yml → ...e/modules/gatk4/applybqsr/environment.yml
diff --git a/modules/nf-core/gatk4/applybqsr/main.nf → ...s/nf-core/modules/gatk4/applybqsr/main.nf b/modules/nf-core/gatk4/applybqsr/main.nf → ...s/nf-core/modules/gatk4/applybqsr/main.nf
diff --git a/modules/nf-core/gatk4/applybqsr/meta.yml → .../nf-core/modules/gatk4/applybqsr/meta.yml b/modules/nf-core/gatk4/applybqsr/meta.yml → .../nf-core/modules/gatk4/applybqsr/meta.yml
diff --git a/...f-core/gatk4/applybqsr/tests/main.nf.test → ...odules/gatk4/applybqsr/tests/main.nf.test b/...f-core/gatk4/applybqsr/tests/main.nf.test → ...odules/gatk4/applybqsr/tests/main.nf.test
diff --git a/...e/gatk4/applybqsr/tests/main.nf.test.snap → ...s/gatk4/applybqsr/tests/main.nf.test.snap b/...e/gatk4/applybqsr/tests/main.nf.test.snap → ...s/gatk4/applybqsr/tests/main.nf.test.snap
diff --git a/...es/nf-core/gatk4/applybqsr/tests/tags.yml → ...re/modules/gatk4/applybqsr/tests/tags.yml b/...es/nf-core/gatk4/applybqsr/tests/tags.yml → ...re/modules/gatk4/applybqsr/tests/tags.yml
diff --git a/...re/gatk4/baserecalibrator/environment.yml → ...es/gatk4/baserecalibrator/environment.yml b/...re/gatk4/baserecalibrator/environment.yml → ...es/gatk4/baserecalibrator/environment.yml
diff --git a/...es/nf-core/gatk4/baserecalibrator/main.nf → ...re/modules/gatk4/baserecalibrator/main.nf b/...es/nf-core/gatk4/baserecalibrator/main.nf → ...re/modules/gatk4/baserecalibrator/main.nf
diff --git a/...s/nf-core/gatk4/baserecalibrator/meta.yml → ...e/modules/gatk4/baserecalibrator/meta.yml b/...s/nf-core/gatk4/baserecalibrator/meta.yml → ...e/modules/gatk4/baserecalibrator/meta.yml
diff --git a/...gatk4/baserecalibrator/tests/main.nf.test → ...gatk4/baserecalibrator/tests/main.nf.test b/...gatk4/baserecalibrator/tests/main.nf.test → ...gatk4/baserecalibrator/tests/main.nf.test
diff --git a/.../baserecalibrator/tests/main.nf.test.snap → .../baserecalibrator/tests/main.nf.test.snap b/.../baserecalibrator/tests/main.nf.test.snap → .../baserecalibrator/tests/main.nf.test.snap
diff --git a/...ore/gatk4/baserecalibrator/tests/tags.yml → ...les/gatk4/baserecalibrator/tests/tags.yml b/...ore/gatk4/baserecalibrator/tests/tags.yml → ...les/gatk4/baserecalibrator/tests/tags.yml
diff --git a/...e/gatk4/bedtointervallist/environment.yml → ...s/gatk4/bedtointervallist/environment.yml b/...e/gatk4/bedtointervallist/environment.yml → ...s/gatk4/bedtointervallist/environment.yml
diff --git a/...s/nf-core/gatk4/bedtointervallist/main.nf → ...e/modules/gatk4/bedtointervallist/main.nf b/...s/nf-core/gatk4/bedtointervallist/main.nf → ...e/modules/gatk4/bedtointervallist/main.nf
diff --git a/.../nf-core/gatk4/bedtointervallist/meta.yml → .../modules/gatk4/bedtointervallist/meta.yml b/.../nf-core/gatk4/bedtointervallist/meta.yml → .../modules/gatk4/bedtointervallist/meta.yml
diff --git a/...atk4/bedtointervallist/tests/main.nf.test → ...atk4/bedtointervallist/tests/main.nf.test b/...atk4/bedtointervallist/tests/main.nf.test → ...atk4/bedtointervallist/tests/main.nf.test
diff --git a/...bedtointervallist/tests/main.nf.test.snap → ...bedtointervallist/tests/main.nf.test.snap b/...bedtointervallist/tests/main.nf.test.snap → ...bedtointervallist/tests/main.nf.test.snap
diff --git a/...re/gatk4/bedtointervallist/tests/tags.yml → ...es/gatk4/bedtointervallist/tests/tags.yml b/...re/gatk4/bedtointervallist/tests/tags.yml → ...es/gatk4/bedtointervallist/tests/tags.yml
diff --git a/...f-core/gatk4/combinegvcfs/environment.yml → ...odules/gatk4/combinegvcfs/environment.yml b/...f-core/gatk4/combinegvcfs/environment.yml → ...odules/gatk4/combinegvcfs/environment.yml
diff --git a/modules/nf-core/gatk4/combinegvcfs/main.nf → ...f-core/modules/gatk4/combinegvcfs/main.nf b/modules/nf-core/gatk4/combinegvcfs/main.nf → ...f-core/modules/gatk4/combinegvcfs/main.nf
diff --git a/modules/nf-core/gatk4/combinegvcfs/meta.yml → ...-core/modules/gatk4/combinegvcfs/meta.yml b/modules/nf-core/gatk4/combinegvcfs/meta.yml → ...-core/modules/gatk4/combinegvcfs/meta.yml
diff --git a/...ore/gatk4/combinegvcfs/tests/main.nf.test → ...les/gatk4/combinegvcfs/tests/main.nf.test b/...ore/gatk4/combinegvcfs/tests/main.nf.test → ...les/gatk4/combinegvcfs/tests/main.nf.test
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diff --git a/...nf-core/gatk4/combinegvcfs/tests/tags.yml → ...modules/gatk4/combinegvcfs/tests/tags.yml b/...nf-core/gatk4/combinegvcfs/tests/tags.yml → ...modules/gatk4/combinegvcfs/tests/tags.yml
diff --git a/.../createsequencedictionary/environment.yml → .../createsequencedictionary/environment.yml b/.../createsequencedictionary/environment.yml → .../createsequencedictionary/environment.yml
diff --git a/...re/gatk4/createsequencedictionary/main.nf → ...es/gatk4/createsequencedictionary/main.nf b/...re/gatk4/createsequencedictionary/main.nf → ...es/gatk4/createsequencedictionary/main.nf
diff --git a/...e/gatk4/createsequencedictionary/meta.yml → ...s/gatk4/createsequencedictionary/meta.yml b/...e/gatk4/createsequencedictionary/meta.yml → ...s/gatk4/createsequencedictionary/meta.yml
diff --git a/...eatesequencedictionary/tests/main.nf.test → ...eatesequencedictionary/tests/main.nf.test b/...eatesequencedictionary/tests/main.nf.test → ...eatesequencedictionary/tests/main.nf.test
diff --git a/...equencedictionary/tests/main.nf.test.snap → ...equencedictionary/tests/main.nf.test.snap b/...equencedictionary/tests/main.nf.test.snap → ...equencedictionary/tests/main.nf.test.snap
diff --git a/...4/createsequencedictionary/tests/tags.yml → ...4/createsequencedictionary/tests/tags.yml b/...4/createsequencedictionary/tests/tags.yml → ...4/createsequencedictionary/tests/tags.yml
diff --git a/...ore/gatk4/haplotypecaller/environment.yml → ...les/gatk4/haplotypecaller/environment.yml b/...ore/gatk4/haplotypecaller/environment.yml → ...les/gatk4/haplotypecaller/environment.yml
diff --git a/...les/nf-core/gatk4/haplotypecaller/main.nf → ...ore/modules/gatk4/haplotypecaller/main.nf b/...les/nf-core/gatk4/haplotypecaller/main.nf → ...ore/modules/gatk4/haplotypecaller/main.nf
diff --git a/...es/nf-core/gatk4/haplotypecaller/meta.yml → ...re/modules/gatk4/haplotypecaller/meta.yml b/...es/nf-core/gatk4/haplotypecaller/meta.yml → ...re/modules/gatk4/haplotypecaller/meta.yml
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diff --git a/modules/nf-core/samtools/sort/main.nf → ...les/nf-core/modules/samtools/sort/main.nf b/modules/nf-core/samtools/sort/main.nf → ...les/nf-core/modules/samtools/sort/main.nf
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diff --git a/.../nf-core/samtools/sort/tests/main.nf.test → .../modules/samtools/sort/tests/main.nf.test b/.../nf-core/samtools/sort/tests/main.nf.test → .../modules/samtools/sort/tests/main.nf.test
diff --git a/...ore/samtools/sort/tests/main.nf.test.snap → ...les/samtools/sort/tests/main.nf.test.snap b/...ore/samtools/sort/tests/main.nf.test.snap → ...les/samtools/sort/tests/main.nf.test.snap
diff --git a/...-core/samtools/sort/tests/nextflow.config → ...dules/samtools/sort/tests/nextflow.config b/...-core/samtools/sort/tests/nextflow.config → ...dules/samtools/sort/tests/nextflow.config
diff --git a/modules/nf-core/samtools/sort/tests/tags.yml → ...core/modules/samtools/sort/tests/tags.yml b/modules/nf-core/samtools/sort/tests/tags.yml → ...core/modules/samtools/sort/tests/tags.yml
diff --git a/...es/nf-core/samtools/stats/environment.yml → ...re/modules/samtools/stats/environment.yml b/...es/nf-core/samtools/stats/environment.yml → ...re/modules/samtools/stats/environment.yml
diff --git a/modules/nf-core/samtools/stats/main.nf → ...es/nf-core/modules/samtools/stats/main.nf b/modules/nf-core/samtools/stats/main.nf → ...es/nf-core/modules/samtools/stats/main.nf
diff --git a/modules/nf-core/samtools/stats/meta.yml → ...s/nf-core/modules/samtools/stats/meta.yml b/modules/nf-core/samtools/stats/meta.yml → ...s/nf-core/modules/samtools/stats/meta.yml
diff --git a/...nf-core/samtools/stats/tests/main.nf.test → ...modules/samtools/stats/tests/main.nf.test b/...nf-core/samtools/stats/tests/main.nf.test → ...modules/samtools/stats/tests/main.nf.test
diff --git a/...re/samtools/stats/tests/main.nf.test.snap → ...es/samtools/stats/tests/main.nf.test.snap b/...re/samtools/stats/tests/main.nf.test.snap → ...es/samtools/stats/tests/main.nf.test.snap
diff --git a/...les/nf-core/samtools/stats/tests/tags.yml → ...ore/modules/samtools/stats/tests/tags.yml b/...les/nf-core/samtools/stats/tests/tags.yml → ...ore/modules/samtools/stats/tests/tags.yml
diff --git a/...s/nf-core/snpeff/download/environment.yml → ...e/modules/snpeff/download/environment.yml b/...s/nf-core/snpeff/download/environment.yml → ...e/modules/snpeff/download/environment.yml
diff --git a/modules/nf-core/snpeff/download/main.nf → ...s/nf-core/modules/snpeff/download/main.nf b/modules/nf-core/snpeff/download/main.nf → ...s/nf-core/modules/snpeff/download/main.nf
diff --git a/modules/nf-core/snpeff/download/meta.yml → .../nf-core/modules/snpeff/download/meta.yml b/modules/nf-core/snpeff/download/meta.yml → .../nf-core/modules/snpeff/download/meta.yml
diff --git a/...les/nf-core/snpeff/snpeff/environment.yml → ...ore/modules/snpeff/snpeff/environment.yml b/...les/nf-core/snpeff/snpeff/environment.yml → ...ore/modules/snpeff/snpeff/environment.yml
diff --git a/modules/nf-core/snpeff/snpeff/main.nf → ...les/nf-core/modules/snpeff/snpeff/main.nf b/modules/nf-core/snpeff/snpeff/main.nf → ...les/nf-core/modules/snpeff/snpeff/main.nf
diff --git a/modules/nf-core/snpeff/snpeff/meta.yml → ...es/nf-core/modules/snpeff/snpeff/meta.yml b/modules/nf-core/snpeff/snpeff/meta.yml → ...es/nf-core/modules/snpeff/snpeff/meta.yml
diff --git a/.../nf-core/snpeff/snpeff/tests/main.nf.test → .../modules/snpeff/snpeff/tests/main.nf.test b/.../nf-core/snpeff/snpeff/tests/main.nf.test → .../modules/snpeff/snpeff/tests/main.nf.test
diff --git a/...ore/snpeff/snpeff/tests/main.nf.test.snap → ...les/snpeff/snpeff/tests/main.nf.test.snap b/...ore/snpeff/snpeff/tests/main.nf.test.snap → ...les/snpeff/snpeff/tests/main.nf.test.snap
diff --git a/...-core/snpeff/snpeff/tests/nextflow.config → ...dules/snpeff/snpeff/tests/nextflow.config b/...-core/snpeff/snpeff/tests/nextflow.config → ...dules/snpeff/snpeff/tests/nextflow.config
diff --git a/modules/nf-core/snpeff/snpeff/tests/tags.yml → ...core/modules/snpeff/snpeff/tests/tags.yml b/modules/nf-core/snpeff/snpeff/tests/tags.yml → ...core/modules/snpeff/snpeff/tests/tags.yml
diff --git a/modules/nf-core/star/align/environment.yml → ...f-core/modules/star/align/environment.yml b/modules/nf-core/star/align/environment.yml → ...f-core/modules/star/align/environment.yml
diff --git a/modules/nf-core/star/align/main.nf → modules/nf-core/modules/star/align/main.nf b/modules/nf-core/star/align/main.nf → modules/nf-core/modules/star/align/main.nf
diff --git a/modules/nf-core/star/align/meta.yml → modules/nf-core/modules/star/align/meta.yml b/modules/nf-core/star/align/meta.yml → modules/nf-core/modules/star/align/meta.yml
diff --git a/...les/nf-core/star/align/tests/main.nf.test → ...ore/modules/star/align/tests/main.nf.test b/...les/nf-core/star/align/tests/main.nf.test → ...ore/modules/star/align/tests/main.nf.test
diff --git a/...f-core/star/align/tests/main.nf.test.snap → ...odules/star/align/tests/main.nf.test.snap b/...f-core/star/align/tests/main.nf.test.snap → ...odules/star/align/tests/main.nf.test.snap
diff --git a/...e/star/align/tests/nextflow.arriba.config → ...s/star/align/tests/nextflow.arriba.config b/...e/star/align/tests/nextflow.arriba.config → ...s/star/align/tests/nextflow.arriba.config
diff --git a/.../nf-core/star/align/tests/nextflow.config → .../modules/star/align/tests/nextflow.config b/.../nf-core/star/align/tests/nextflow.config → .../modules/star/align/tests/nextflow.config
diff --git a/...ar/align/tests/nextflow.starfusion.config → ...ar/align/tests/nextflow.starfusion.config b/...ar/align/tests/nextflow.starfusion.config → ...ar/align/tests/nextflow.starfusion.config
diff --git a/modules/nf-core/star/align/tests/tags.yml → ...nf-core/modules/star/align/tests/tags.yml b/modules/nf-core/star/align/tests/tags.yml → ...nf-core/modules/star/align/tests/tags.yml
diff --git a/...-core/star/genomegenerate/environment.yml → ...dules/star/genomegenerate/environment.yml b/...-core/star/genomegenerate/environment.yml → ...dules/star/genomegenerate/environment.yml
diff --git a/modules/nf-core/star/genomegenerate/main.nf → ...-core/modules/star/genomegenerate/main.nf b/modules/nf-core/star/genomegenerate/main.nf → ...-core/modules/star/genomegenerate/main.nf
diff --git a/modules/nf-core/star/genomegenerate/meta.yml → ...core/modules/star/genomegenerate/meta.yml b/modules/nf-core/star/genomegenerate/meta.yml → ...core/modules/star/genomegenerate/meta.yml
diff --git a/...re/star/genomegenerate/tests/main.nf.test → ...es/star/genomegenerate/tests/main.nf.test b/...re/star/genomegenerate/tests/main.nf.test → ...es/star/genomegenerate/tests/main.nf.test
diff --git a/...ar/genomegenerate/tests/main.nf.test.snap → ...ar/genomegenerate/tests/main.nf.test.snap b/...ar/genomegenerate/tests/main.nf.test.snap → ...ar/genomegenerate/tests/main.nf.test.snap
diff --git a/...f-core/star/genomegenerate/tests/tags.yml → ...odules/star/genomegenerate/tests/tags.yml b/...f-core/star/genomegenerate/tests/tags.yml → ...odules/star/genomegenerate/tests/tags.yml
diff --git a/.../nf-core/tabix/bgziptabix/environment.yml → .../modules/tabix/bgziptabix/environment.yml b/.../nf-core/tabix/bgziptabix/environment.yml → .../modules/tabix/bgziptabix/environment.yml
diff --git a/modules/nf-core/tabix/bgziptabix/main.nf → .../nf-core/modules/tabix/bgziptabix/main.nf b/modules/nf-core/tabix/bgziptabix/main.nf → .../nf-core/modules/tabix/bgziptabix/main.nf
diff --git a/modules/nf-core/tabix/bgziptabix/meta.yml → ...nf-core/modules/tabix/bgziptabix/meta.yml b/modules/nf-core/tabix/bgziptabix/meta.yml → ...nf-core/modules/tabix/bgziptabix/meta.yml
diff --git a/...-core/tabix/bgziptabix/tests/main.nf.test → ...dules/tabix/bgziptabix/tests/main.nf.test b/...-core/tabix/bgziptabix/tests/main.nf.test → ...dules/tabix/bgziptabix/tests/main.nf.test
diff --git a/.../tabix/bgziptabix/tests/main.nf.test.snap → .../tabix/bgziptabix/tests/main.nf.test.snap b/.../tabix/bgziptabix/tests/main.nf.test.snap → .../tabix/bgziptabix/tests/main.nf.test.snap
diff --git a/...e/tabix/bgziptabix/tests/tabix_csi.config → ...s/tabix/bgziptabix/tests/tabix_csi.config b/...e/tabix/bgziptabix/tests/tabix_csi.config → ...s/tabix/bgziptabix/tests/tabix_csi.config
diff --git a/...e/tabix/bgziptabix/tests/tabix_tbi.config → ...s/tabix/bgziptabix/tests/tabix_tbi.config b/...e/tabix/bgziptabix/tests/tabix_tbi.config → ...s/tabix/bgziptabix/tests/tabix_tbi.config
diff --git a/...s/nf-core/tabix/bgziptabix/tests/tags.yml → ...e/modules/tabix/bgziptabix/tests/tags.yml b/...s/nf-core/tabix/bgziptabix/tests/tags.yml → ...e/modules/tabix/bgziptabix/tests/tags.yml
diff --git a/modules/nf-core/tabix/tabix/environment.yml → ...-core/modules/tabix/tabix/environment.yml b/modules/nf-core/tabix/tabix/environment.yml → ...-core/modules/tabix/tabix/environment.yml
diff --git a/modules/nf-core/tabix/tabix/main.nf → modules/nf-core/modules/tabix/tabix/main.nf b/modules/nf-core/tabix/tabix/main.nf → modules/nf-core/modules/tabix/tabix/main.nf
diff --git a/modules/nf-core/tabix/tabix/meta.yml → modules/nf-core/modules/tabix/tabix/meta.yml b/modules/nf-core/tabix/tabix/meta.yml → modules/nf-core/modules/tabix/tabix/meta.yml
diff --git a/...es/nf-core/tabix/tabix/tests/main.nf.test → ...re/modules/tabix/tabix/tests/main.nf.test b/...es/nf-core/tabix/tabix/tests/main.nf.test → ...re/modules/tabix/tabix/tests/main.nf.test
diff --git a/...-core/tabix/tabix/tests/main.nf.test.snap → ...dules/tabix/tabix/tests/main.nf.test.snap b/...-core/tabix/tabix/tests/main.nf.test.snap → ...dules/tabix/tabix/tests/main.nf.test.snap
diff --git a/...f-core/tabix/tabix/tests/tabix_bed.config → ...odules/tabix/tabix/tests/tabix_bed.config b/...f-core/tabix/tabix/tests/tabix_bed.config → ...odules/tabix/tabix/tests/tabix_bed.config
diff --git a/...f-core/tabix/tabix/tests/tabix_gff.config → ...odules/tabix/tabix/tests/tabix_gff.config b/...f-core/tabix/tabix/tests/tabix_gff.config → ...odules/tabix/tabix/tests/tabix_gff.config
diff --git a/...re/tabix/tabix/tests/tabix_vcf_csi.config → ...es/tabix/tabix/tests/tabix_vcf_csi.config b/...re/tabix/tabix/tests/tabix_vcf_csi.config → ...es/tabix/tabix/tests/tabix_vcf_csi.config
diff --git a/...re/tabix/tabix/tests/tabix_vcf_tbi.config → ...es/tabix/tabix/tests/tabix_vcf_tbi.config b/...re/tabix/tabix/tests/tabix_vcf_tbi.config → ...es/tabix/tabix/tests/tabix_vcf_tbi.config
diff --git a/modules/nf-core/tabix/tabix/tests/tags.yml → ...f-core/modules/tabix/tabix/tests/tags.yml b/modules/nf-core/tabix/tabix/tests/tags.yml → ...f-core/modules/tabix/tabix/tests/tags.yml
diff --git a/modules/nf-core/untar/environment.yml → ...les/nf-core/modules/untar/environment.yml b/modules/nf-core/untar/environment.yml → ...les/nf-core/modules/untar/environment.yml
diff --git a/modules/nf-core/untar/main.nf → modules/nf-core/modules/untar/main.nf b/modules/nf-core/untar/main.nf → modules/nf-core/modules/untar/main.nf
diff --git a/modules/nf-core/untar/meta.yml → modules/nf-core/modules/untar/meta.yml b/modules/nf-core/untar/meta.yml → modules/nf-core/modules/untar/meta.yml
diff --git a/modules/nf-core/untar/tests/main.nf.test → .../nf-core/modules/untar/tests/main.nf.test b/modules/nf-core/untar/tests/main.nf.test → .../nf-core/modules/untar/tests/main.nf.test
diff --git a/...les/nf-core/untar/tests/main.nf.test.snap → ...ore/modules/untar/tests/main.nf.test.snap b/...les/nf-core/untar/tests/main.nf.test.snap → ...ore/modules/untar/tests/main.nf.test.snap
diff --git a/modules/nf-core/untar/tests/tags.yml → modules/nf-core/modules/untar/tests/tags.yml b/modules/nf-core/untar/tests/tags.yml → modules/nf-core/modules/untar/tests/tags.yml