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edna
snakemake_only_obitools
Commits
cebd17f5
Commit
cebd17f5
authored
Dec 02, 2019
by
peguerin
Browse files
snakefile assign taxon
parent
307968ce
Changes
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03-filtered/Snakefile
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cebd17f5
configfile: "config.yaml"
RUNS, = glob_wildcards('01-runs/{run}_run.fasta')
rule all:
input:
expand('01-runs/{run}_run.fasta',run=RUNS),
expand('02-dereplicated/{run}_run.uniq.fasta', run=RUNS),
expand('03-assigned/{run}_run.tag.u.fasta', run=RUNS),
expand('04-formated/{run}_run.a.t.u.fasta', run=RUNS),
expand('04-formated/{run}_run.s.a.t.u.fasta', run=RUNS),
expand('../04-final_tables/{run}.csv', run=RUNS),
expand('../99-log/09-dereplicate_runs/{run}.log', run=RUNS),
expand('../99-log/10-assign_taxon/{run}.log', run=RUNS),
expand('../99-log/11-rm_attributes/{run}.log', run=RUNS),
expand('../99-log/12-sort_runs/{run}.log', run=RUNS),
expand('../99-log/13-table_runs/{run}.log',run=RUNS)
include: "../00-rules/dereplicate_runs.smk"
include: "../00-rules/assign_taxon.smk"
include: "../00-rules/format_fas2tab.smk"
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