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Merge pull request #269 from nf-core/reduce-full-test-output
Deactivate saving of reads and other large files for full tests
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commit
af61e007b3
1 changed files with 33 additions and 34 deletions
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@ -19,52 +19,51 @@ params {
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// Genome references
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hostremoval_reference = 'ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/819/615/GCA_000819615.1_ViralProj14015/GCA_000819615.1_ViralProj14015_genomic.fna.gz'
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save_preprocessed_reads = true
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save_preprocessed_reads = false
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perform_shortread_qc = true
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shortread_qc_mergepairs = true
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perform_shortread_complexityfilter = true
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save_complexityfiltered_reads = true
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perform_shortread_qc = true
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shortread_qc_mergepairs = true
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perform_shortread_complexityfilter = false
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save_complexityfiltered_reads = false
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perform_longread_qc = true
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perform_shortread_hostremoval = true
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perform_longread_hostremoval = true
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save_hostremoval_index = true
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save_hostremoval_bam = true
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save_hostremoval_unmapped = true
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perform_longread_qc = true
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perform_shortread_hostremoval = true
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perform_longread_hostremoval = true
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save_hostremoval_index = false
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save_hostremoval_bam = false
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save_hostremoval_unmapped = false
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perform_runmerging = true
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save_runmerged_reads = true
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perform_runmerging = true
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save_runmerged_reads = false
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run_centrifuge = true
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centrifuge_save_reads = true
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run_centrifuge = true
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centrifuge_save_reads = false
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run_diamond = true
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run_diamond = true
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run_kaiju = true
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run_kaiju = true
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run_kraken2 = true
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kraken2_save_reads = true
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kraken2_save_readclassification = true
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kraken2_save_minimizers = true
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run_kraken2 = true
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kraken2_save_reads = false
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kraken2_save_readclassification = false
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kraken2_save_minimizers = false
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run_krakenuniq = true
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krakenuniq_save_reads = true
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krakenuniq_save_readclassifications = true
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run_krakenuniq = true
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krakenuniq_save_reads = false
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krakenuniq_save_readclassifications = false
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run_bracken = true
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run_bracken = true
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run_malt = true
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malt_save_reads = false
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malt_generate_megansummary = true
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run_malt = true
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malt_save_reads = true
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malt_generate_megansummary = true
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run_metaphlan3 = true
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run_metaphlan3 = true
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run_motus = true
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motus_save_mgc_read_counts = true
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run_motus = true
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motus_save_mgc_read_counts = true
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run_profile_standardisation = true
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run_krona = true
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run_profile_standardisation = true
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run_krona = true
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}
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cleanup = true
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