... | ... | @@ -32,11 +32,11 @@ module load system/singularity-3.7.3 |
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nextflow run -profile genotoul <metagwgs-src>/main.nf \
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--type 'HIFI' \
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--input "samplesheet.csv" \
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-c '<bank>/hifi_data_workq.config'\
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-c '<bank>/hifi_data_workq.config' \
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--skip_host_filter --skip_filtering \
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--kaiju_db_dir '<bank>/kaijudb_refseq_2020-05-25' \
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--taxdump '<bank>/new_taxdump' \
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--accession2taxid '<bank>/subsampled_accesssion2taxid.tsv'\
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--accession2taxid '<bank>/subsampled_accesssion2taxid.tsv' \
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--eggnog_mapper_db_dir '<bank>/db_eggnog_mapper' \
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--diamond_bank '<bank>/diamond_nr_subselected_db.dmnd' \
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--gtdbtk_bank '<bank>/GTDB-TKrelease207_v2' \
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... | ... | |